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| <section id="fastq_quality_control" name="FASTQ Quality Control" version=""> | |
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| <repository_name>fastqc</repository_name> | |
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| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fastq_stats/9b7b4e0ca9db/fastq_stats/fastq_stats.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fastq_stats/fastq_stats/1.0.0"> | |
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| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fastx_quality_statistics/45f077341b24/fastx_quality_statistics/fastx_quality_statistics.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fastx_quality_statistics/cshl_fastx_quality_statistics/1.0.0"> | |
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| <repository_name>fastx_quality_statistics</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
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| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fastx_nucleotides_distribution/bcc5424a4a3c/fastx_nucleotides_distribution/fastx_nucleotides_distribution.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fastx_nucleotides_distribution/cshl_fastx_nucleotides_distribution/1.0.0"> | |
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| <repository_name>fastx_nucleotides_distribution</repository_name> | |
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| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fastq_quality_boxplot/e359ce20fbd9/fastq_quality_boxplot/fastq_quality_boxplot.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fastq_quality_boxplot/cshl_fastq_quality_boxplot/1.0.0"> | |
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| <repository_owner>devteam</repository_owner> | |
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| <id>toolshed.g2.bx.psu.edu/repos/devteam/fastq_quality_boxplot/cshl_fastq_quality_boxplot/1.0.0</id> | |
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| </section> | |
| <section id="convert_formats" name="Convert Formats"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_fasta/04614cf6ed39/fastq_to_fasta/fastq_to_fasta.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_fasta/cshl_fastq_to_fasta/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>fastq_to_fasta</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
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| <id>toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_fasta/cshl_fastq_to_fasta/1.0.0</id> | |
| <version>1.0.0</version> | |
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| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fastqtofasta/3571553aeb20/fastqtofasta/fastq_to_fasta.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fastqtofasta/fastq_to_fasta_python/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>fastqtofasta</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
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| <id>toolshed.g2.bx.psu.edu/repos/devteam/fastqtofasta/fastq_to_fasta_python/1.0.0</id> | |
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| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fastq/b334cd1095ea/tabular_to_fastq/tabular_to_fastq.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fastq/tabular_to_fastq/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
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| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_tabular/bc9269529e88/fastq_to_tabular/fastq_to_tabular.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_tabular/fastq_to_tabular/1.1.0"> | |
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| <repository_name>fastq_to_tabular</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
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| <id>toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_tabular/fastq_to_tabular/1.1.0</id> | |
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| <section id="variant_calling" name="Variant Calling" version=""> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/mutate_snp_codon/8f0af7251167/mutate_snp_codon/mutate_snp_codon.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/mutate_snp_codon/mutate_snp_codon_1/1.0.0"> | |
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| <repository_owner>devteam</repository_owner> | |
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| <section id="graph_display_data" name="Graph/Display Data"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/xy_plot/acf952549b53/xy_plot/xy_plot.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/xy_plot/XY_Plot_1/1.0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
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| <id>toolshed.g2.bx.psu.edu/repos/devteam/xy_plot/XY_Plot_1/1.0.1</id> | |
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| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/gmaj/2cd5ee197ec7/gmaj/GMAJ.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/gmaj/gmaj_1/2.0.1"> | |
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| <repository_name>gmaj</repository_name> | |
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| <section id="picard" name="Picard"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/picard_FastqToSam.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_FastqToSam/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
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| <version>1.56.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/picard_SamToFastq.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SamToFastq/1.56.1" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_SamToFastq/1.56.1</id> | |
| <version>1.56.1</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/picard_BamIndexStats.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_BamIndexStats/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_BamIndexStats/1.56.0</id> | |
| <version>1.56.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/rgPicardASMetrics.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/PicardASMetrics/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/PicardASMetrics/1.56.0</id> | |
| <version>1.56.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/rgPicardGCBiasMetrics.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/PicardGCBiasMetrics/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/PicardGCBiasMetrics/1.56.0</id> | |
| <version>1.56.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/rgPicardLibComplexity.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/rgEstLibComp/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/rgEstLibComp/1.56.0</id> | |
| <version>1.56.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/rgPicardInsertSize.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/PicardInsertSize/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/PicardInsertSize/1.56.0</id> | |
| <version>1.56.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/rgPicardHsMetrics.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/PicardHsMetrics/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/PicardHsMetrics/1.56.0</id> | |
| <version>1.56.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/picard_AddOrReplaceReadGroups.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ARRG/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ARRG/1.56.0</id> | |
| <version>1.56.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/picard_ReorderSam.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ReorderSam/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ReorderSam/1.56.0</id> | |
| <version>1.56.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/picard_ReplaceSamHeader.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ReplaceSamHeader/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/picard_ReplaceSamHeader/1.56.0</id> | |
| <version>1.56.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/rgPicardFixMate.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicFixMate/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicFixMate/1.56.0</id> | |
| <version>1.56.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/picard/e0232cbac965/picard/rgPicardMarkDups.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicardMarkDups/1.56.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>picard</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e0232cbac965</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/picard/rgPicardMarkDups/1.56.0</id> | |
| <version>1.56.0</version> | |
| </tool> | |
| </section> | |
| <section id="rna_seq" name="RNA-seq"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/cuffcompare/9a3f7a890da6/cuffcompare/cuffcompare_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/cuffcompare/cuffcompare/0.0.5" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>cuffcompare</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>9a3f7a890da6</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/cuffcompare/cuffcompare/0.0.5</id> | |
| <version>0.0.5</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/b01956f26c36/cufflinks/cufflinks_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/cufflinks/0.0.6" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>cufflinks</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>b01956f26c36</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/cufflinks/cufflinks/0.0.6</id> | |
| <version>0.0.6</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/cuffmerge/fdc55fd74f78/cuffmerge/cuffmerge_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/cuffmerge/cuffmerge/0.0.5"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>cuffmerge</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>fdc55fd74f78</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/cuffmerge/cuffmerge/0.0.5</id> | |
| <version>0.0.5</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/filter_transcripts_via_tracking/31154ff9f5e1/filter_transcripts_via_tracking/filter_transcripts_via_tracking.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/filter_transcripts_via_tracking/filter_combined_via_tracking/0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>filter_transcripts_via_tracking</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>31154ff9f5e1</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/filter_transcripts_via_tracking/filter_combined_via_tracking/0.1</id> | |
| <version>0.1</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/tophat/1030acbecce6/tophat/tophat_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/tophat/tophat/1.5.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>tophat</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>1030acbecce6</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/tophat/tophat/1.5.0</id> | |
| <version>1.5.0</version> | |
| </tool> | |
| </section> | |
| <section id="rna_analysis__deprecated_" name="RNA Analysis (deprecated)" version=""> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/tophat2/ffa30bedbee3/tophat2/tophat2_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/tophat2/tophat2/0.6"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>tophat2</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>ffa30bedbee3</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/tophat2/tophat2/0.6</id> | |
| <version>0.6</version> | |
| </tool> | |
| </section> | |
| <section id="multiple_alignments" name="Multiple Alignments"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/clustalw/7cc64024fe92/clustalw/rgClustalw.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/clustalw/clustalw/0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>clustalw</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>7cc64024fe92</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/clustalw/clustalw/0.1</id> | |
| <version>0.1</version> | |
| </tool> | |
| </section> | |
| <section id="metagenomic_analysis__deprecated_" name="Metagenomic Analysis (deprecated)"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/find_diag_hits/acf51ff24c7d/find_diag_hits/find_diag_hits.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/find_diag_hits/find_diag_hits/1.0.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>find_diag_hits</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>acf51ff24c7d</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/find_diag_hits/find_diag_hits/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/gi2taxonomy/7b1b03c4465d/gi2taxonomy/gi2taxonomy.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/gi2taxonomy/Fetch Taxonomic Ranks/1.1.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>gi2taxonomy</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>7b1b03c4465d</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/gi2taxonomy/Fetch Taxonomic Ranks/1.1.0</id> | |
| <version>1.1.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/lca_wrapper/33e8ed5a4601/lca_wrapper/lca.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/lca_wrapper/lca1/1.0.1" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>lca_wrapper</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>33e8ed5a4601</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/lca_wrapper/lca1/1.0.1</id> | |
| <version>1.0.1</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/poisson2test/8cd5945559b8/poisson2test/poisson2test.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/poisson2test/poisson2test/1.0.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>poisson2test</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>8cd5945559b8</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/poisson2test/poisson2test/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/t2ps/9e2b9ca7f33a/t2ps/t2ps_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/t2ps/Draw_phylogram/1.0.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>t2ps</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>9e2b9ca7f33a</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/t2ps/Draw_phylogram/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/t2t_report/592acb9505fc/t2t_report/t2t_report.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/t2t_report/t2t_report/1.0.0" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>t2t_report</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>592acb9505fc</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/t2t_report/t2t_report/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="chip_seq" name="ChIP-seq"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/sicer/82a8234e03f2/sicer/sicer_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/sicer/peakcalling_sicer/0.0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>sicer</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>82a8234e03f2</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/sicer/peakcalling_sicer/0.0.1</id> | |
| <version>0.0.1</version> | |
| </tool> | |
| </section> | |
| <section id="motif" name="Motif"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/weblogo3/66253fc0a69b/weblogo3/rgWebLogo3.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/weblogo3/rgweblogo3/0.4"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>weblogo3</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>66253fc0a69b</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/weblogo3/rgweblogo3/0.4</id> | |
| <version>0.4</version> | |
| </tool> | |
| </section> | |
| <!-- newer version in shed_tool_conf.xml. | |
| <section id="operate_on_genomic_intervals" name="Operate on Genomic Intervals"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/concat/8aa939ace6ba/concat/concat.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/concat/gops_concat_1/1.0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>concat</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>8aa939ace6ba</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/concat/gops_concat_1/1.0.1</id> | |
| <version>1.0.1</version> | |
| </tool> | |
| </section> | |
| --> | |
| <section id="operate_on_genomic_intervals" name="Operate on Genomic Intervals"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/flanking_features/90100b587723/flanking_features/flanking_features.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/flanking_features/flanking_features_1/4.0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>flanking_features</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>90100b587723</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/flanking_features/flanking_features_1/4.0.1</id> | |
| <version>4.0.1</version> | |
| </tool> | |
| </section> | |
| <section id="operate_on_genomic_intervals" name="Operate on Genomic Intervals"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/merge/b488a1fa07f6/merge/merge.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/merge/gops_merge_1/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>merge</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>b488a1fa07f6</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/merge/gops_merge_1/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="statistics" name="Statistics" version=""> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/linear_regression/cf431604ec3e/linear_regression/linear_regression.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/linear_regression/LinearRegression1/1.0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>linear_regression</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>cf431604ec3e</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/linear_regression/LinearRegression1/1.0.1</id> | |
| <version>1.0.1</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/logistic_regression_vif/bd196d7c1ca9/logistic_regression_vif/logistic_regression_vif.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/logistic_regression_vif/LogisticRegression/1.0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>logistic_regression_vif</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>bd196d7c1ca9</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/logistic_regression_vif/LogisticRegression/1.0.1</id> | |
| <version>1.0.1</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/partialr_square/88ef41de020d/partialr_square/partialR_square.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/partialr_square/partialRsq/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>partialr_square</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>88ef41de020d</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/partialr_square/partialRsq/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/rcve/7740956d197b/rcve/rcve.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/rcve/rcve1/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>rcve</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>7740956d197b</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/rcve/rcve1/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="regional_variation" name="Regional Variation"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/quality_filter/8d65bbc52dfe/quality_filter/quality_filter.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/quality_filter/qualityFilter/1.0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>quality_filter</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>8d65bbc52dfe</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/quality_filter/qualityFilter/1.0.1</id> | |
| <version>1.0.1</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/substitution_rates/d1b35bcdaacc/substitution_rates/substitution_rates.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/substitution_rates/subRate1/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>substitution_rates</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>d1b35bcdaacc</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/substitution_rates/subRate1/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/substitutions/c54f5d0bbb58/substitutions/substitutions.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/substitutions/substitutions1/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>substitutions</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>c54f5d0bbb58</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/substitutions/substitutions1/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/weightedaverage/90611e86a998/weightedaverage/WeightedAverage.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/weightedaverage/wtavg/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>weightedaverage</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>90611e86a998</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/weightedaverage/wtavg/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/indels_3way/5ad24b81dd10/indels_3way/getIndels_3way.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/indels_3way/indels_3way/1.0.3"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>indels_3way</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>5ad24b81dd10</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/indels_3way/indels_3way/1.0.3</id> | |
| <version>1.0.3</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/featurecounter/ac6218e2b686/featurecounter/featureCounter.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/featurecounter/featureCoverage1/2.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>featurecounter</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>ac6218e2b686</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/featurecounter/featureCoverage1/2.0.0</id> | |
| <version>2.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/getindelrates_3way/d427e5acb9ee/getindelrates_3way/getIndelRates_3way.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/getindelrates_3way/indelRates_3way/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>getindelrates_3way</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>d427e5acb9ee</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/getindelrates_3way/indelRates_3way/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/maf_cpg_filter/7f2a12cb047d/maf_cpg_filter/maf_cpg_filter.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/maf_cpg_filter/cpgFilter/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>maf_cpg_filter</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>7f2a12cb047d</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/maf_cpg_filter/cpgFilter/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/microsats_mutability/4aa1ee5d8510/microsats_mutability/microsats_mutability.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/microsats_mutability/microsats_mutability1/1.1.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>microsats_mutability</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>4aa1ee5d8510</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/microsats_mutability/microsats_mutability1/1.1.0</id> | |
| <version>1.1.0</version> | |
| </tool> | |
| </section> | |
| <section id="join__subtract_and_group" name="Join, Subtract and Group"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/subtract_query/5f6ebef89722/subtract_query/subtract_query.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/subtract_query/subtract_query1/0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>subtract_query</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>5f6ebef89722</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/subtract_query/subtract_query1/0.1</id> | |
| <version>0.1</version> | |
| </tool> | |
| </section> | |
| <section id="operate_on_genomic_intervals" name="Operate on Genomic Intervals"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/annotation_profiler/3b33da018e74/annotation_profiler/annotation_profiler.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/annotation_profiler/Annotation_Profiler_0/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>annotation_profiler</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>3b33da018e74</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/annotation_profiler/Annotation_Profiler_0/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="fasta_fastq" name="FASTA/FASTQ"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fasta_compute_length/ece409f6573c/fasta_compute_length/fasta_compute_length.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fasta_compute_length/fasta_compute_length/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>fasta_compute_length</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>ece409f6573c</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/fasta_compute_length/fasta_compute_length/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="fasta_fastq" name="FASTA/FASTQ"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fasta_concatenate_by_species/2126e1b833a2/fasta_concatenate_by_species/fasta_concatenate_by_species.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fasta_concatenate_by_species/fasta_concatenate0/0.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>fasta_concatenate_by_species</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>2126e1b833a2</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/fasta_concatenate_by_species/fasta_concatenate0/0.0.0</id> | |
| <version>0.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="fasta_fastq" name="FASTA/FASTQ"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fasta_filter_by_length/16679a7f554a/fasta_filter_by_length/fasta_filter_by_length.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fasta_filter_by_length/fasta_filter_by_length/1.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>fasta_filter_by_length</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>16679a7f554a</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/fasta_filter_by_length/fasta_filter_by_length/1.1</id> | |
| <version>1.1</version> | |
| </tool> | |
| </section> | |
| <section id="convert_formats" name="Convert Formats"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/9d189d08f2ad/fasta_to_tabular/fasta_to_tabular.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/fasta2tab/1.1.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>fasta_to_tabular</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>9d189d08f2ad</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/fasta2tab/1.1.0</id> | |
| <version>1.1.0</version> | |
| </tool> | |
| </section> | |
| <section id="fasta_fastq" name="FASTA/FASTQ"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/9d189d08f2ad/fasta_to_tabular/fasta_to_tabular.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/fasta2tab/1.1.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>fasta_to_tabular</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>9d189d08f2ad</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/fasta2tab/1.1.0</id> | |
| <version>1.1.0</version> | |
| </tool> | |
| </section> | |
| <section id="mapping" name="Mapping"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/megablast_wrapper/dc7b4acb3fa6/megablast_wrapper/megablast_wrapper.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/megablast_wrapper/megablast_wrapper/1.2.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>megablast_wrapper</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>dc7b4acb3fa6</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/megablast_wrapper/megablast_wrapper/1.2.0</id> | |
| <version>1.2.0</version> | |
| </tool> | |
| </section> | |
| <section id="mapping" name="Mapping"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/megablast_xml_parser/03ca082aeb2e/megablast_xml_parser/megablast_xml_parser.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/megablast_xml_parser/megablast_xml_parser/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>megablast_xml_parser</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>03ca082aeb2e</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/megablast_xml_parser/megablast_xml_parser/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="fasta_fastq" name="FASTA/FASTQ"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/short_reads_figure_score/b52b9c7aabd9/short_reads_figure_score/short_reads_figure_score.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/short_reads_figure_score/quality_score_distribution/1.0.2"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>short_reads_figure_score</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>b52b9c7aabd9</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/short_reads_figure_score/quality_score_distribution/1.0.2</id> | |
| <version>1.0.2</version> | |
| </tool> | |
| </section> | |
| <section id="fasta_fastq" name="FASTA/FASTQ"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/short_reads_trim_seq/f17a1585733b/short_reads_trim_seq/short_reads_trim_seq.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/short_reads_trim_seq/trim_reads/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>short_reads_trim_seq</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>f17a1585733b</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/short_reads_trim_seq/trim_reads/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="convert_formats" name="Convert Formats"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fasta/0b4e36026794/tabular_to_fasta/tabular_to_fasta.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fasta/tab2fasta/1.1.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>tabular_to_fasta</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>0b4e36026794</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fasta/tab2fasta/1.1.0</id> | |
| <version>1.1.0</version> | |
| </tool> | |
| </section> | |
| <section id="fasta_fastq" name="FASTA/FASTQ"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fasta/0b4e36026794/tabular_to_fasta/tabular_to_fasta.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fasta/tab2fasta/1.1.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>tabular_to_fasta</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>0b4e36026794</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fasta/tab2fasta/1.1.0</id> | |
| <version>1.1.0</version> | |
| </tool> | |
| </section> | |
| <section id="text_manipulation" name="Text Manipulation"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/column_maker/08a01b2ce4cd/column_maker/column_maker.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/1.1.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>column_maker</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>08a01b2ce4cd</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/column_maker/Add_a_column1/1.1.0</id> | |
| <version>1.1.0</version> | |
| </tool> | |
| </section> | |
| <section id="statistics" name="Statistics"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/correlation/24e01abf9e34/correlation/cor.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/correlation/cor2/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>correlation</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>24e01abf9e34</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/correlation/cor2/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="filter_and_sort" name="Filter and Sort"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/dna_filtering/a6f0d355b05f/dna_filtering/histogram2.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/dna_filtering/histogram_rpy/1.0.3" hidden="true"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>dna_filtering</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>a6f0d355b05f</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/dna_filtering/histogram_rpy/1.0.3</id> | |
| <version>1.0.3</version> | |
| </tool> | |
| </section> | |
| <section id="statistics" name="Statistics"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/generate_pc_lda_matrix/04cdbd00dcec/generate_pc_lda_matrix/generate_matrix_for_pca_lda.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/generate_pc_lda_matrix/generate_matrix_for_pca_and_lda1/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>generate_pc_lda_matrix</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>04cdbd00dcec</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/generate_pc_lda_matrix/generate_matrix_for_pca_and_lda1/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="graph_display_data" name="Graph/Display Data"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/histogram/6ff47de059a0/histogram/histogram2.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/histogram/histogram_rpy/1.0.3"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>histogram</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>6ff47de059a0</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/histogram/histogram_rpy/1.0.3</id> | |
| <version>1.0.3</version> | |
| </tool> | |
| </section> | |
| <section id="statistics" name="Statistics"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/lda_analysis/f38763b52f33/lda_analysis/lda_analy.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/lda_analysis/lda_analy1/1.0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>lda_analysis</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>f38763b52f33</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/lda_analysis/lda_analy1/1.0.1</id> | |
| <version>1.0.1</version> | |
| </tool> | |
| </section> | |
| <section id="statistics" name="Statistics"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/plot_from_lda/c5ab37076128/plot_from_lda/plot_from_lda.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/plot_from_lda/plot_for_lda_output1/1.0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>plot_from_lda</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>c5ab37076128</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/plot_from_lda/plot_for_lda_output1/1.0.1</id> | |
| <version>1.0.1</version> | |
| </tool> | |
| </section> | |
| <section id="graph_display_data" name="Graph/Display Data"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/scatterplot/c12b0759203b/scatterplot/scatterplot.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/scatterplot/scatterplot_rpy/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>scatterplot</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>c12b0759203b</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/scatterplot/scatterplot_rpy/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="phenotype_association" name="Phenotype Association"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/snpfreq/72ea0d13dd66/snpfreq/snpFreq.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/snpfreq/hgv_snpFreq/1.0.1"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>snpfreq</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>72ea0d13dd66</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/snpfreq/hgv_snpFreq/1.0.1</id> | |
| <version>1.0.1</version> | |
| </tool> | |
| </section> | |
| <section id="graph_display_data" name="Graph/Display Data"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/ucsc_custom_track/618e56c3109b/ucsc_custom_track/build_ucsc_custom_track.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/ucsc_custom_track/build_ucsc_custom_track_1/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>ucsc_custom_track</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>618e56c3109b</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/ucsc_custom_track/build_ucsc_custom_track_1/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="phenotype_association" name="Phenotype Association"> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/vcf2pgsnp/5fca46616675/vcf2pgsnp/vcf2pgSnp.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/vcf2pgsnp/vcf2pgSnp/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>vcf2pgsnp</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>5fca46616675</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/vcf2pgsnp/vcf2pgSnp/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| </section> | |
| <section id="statistics" name="Statistics" version=""> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/canonical_correlation_analysis/9bc0c48a027f/canonical_correlation_analysis/cca.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/canonical_correlation_analysis/cca1/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>canonical_correlation_analysis</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>9bc0c48a027f</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/canonical_correlation_analysis/cca1/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/kernel_canonical_correlation_analysis/7a092113eb8c/kernel_canonical_correlation_analysis/kcca.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/kernel_canonical_correlation_analysis/kcca1/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>kernel_canonical_correlation_analysis</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>7a092113eb8c</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/kernel_canonical_correlation_analysis/kcca1/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/kernel_principal_component_analysis/e9ebd4bfbdfc/kernel_principal_component_analysis/kpca.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/kernel_principal_component_analysis/kpca1/1.0.0"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>kernel_principal_component_analysis</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>e9ebd4bfbdfc</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/kernel_principal_component_analysis/kpca1/1.0.0</id> | |
| <version>1.0.0</version> | |
| </tool> | |
| <tool file="toolshed.g2.bx.psu.edu/repos/devteam/principal_component_analysis/f568051cdf2e/principal_component_analysis/pca.xml" guid="toolshed.g2.bx.psu.edu/repos/devteam/principal_component_analysis/pca1/1.0.2"> | |
| <tool_shed>toolshed.g2.bx.psu.edu</tool_shed> | |
| <repository_name>principal_component_analysis</repository_name> | |
| <repository_owner>devteam</repository_owner> | |
| <installed_changeset_revision>f568051cdf2e</installed_changeset_revision> | |
| <id>toolshed.g2.bx.psu.edu/repos/devteam/principal_component_analysis/pca1/1.0.2</id> | |
| <version>1.0.2</version> | |
| </tool> | |
| </section> | |
| </toolbox> |