GitHub - ctSkennerton/scriptShed: sequence manipulation scripts accumulated over the years. Some may not work anymore.

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sequence manipulation scripts accumulated over the years. Some may not work anymore.

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Name		Name	Last commit message	Last commit date
Latest commit History 137 Commits
ESOM		ESOM
R		R
bam-depth		bam-depth
GenerateRGTags.py		GenerateRGTags.py
README		README
abacasToAgp		abacasToAgp
ani_matrix.py		ani_matrix.py
average_coverage.rb		average_coverage.rb
blast2gff.pl		blast2gff.pl
blast2sam.py		blast2sam.py
blast_parser.pl		blast_parser.pl
calc_per_base_coverage.rb		calc_per_base_coverage.rb
calculateBAMCoverage.py		calculateBAMCoverage.py
calculate_ani.py		calculate_ani.py
charruler		charruler
compare_condition_workflow.rb		compare_condition_workflow.rb
contig_extractor.pl		contig_extractor.pl
debruijn.py		debruijn.py
decorate_tree		decorate_tree
download_ncbi_assembly.py		download_ncbi_assembly.py
extract_features.rb		extract_features.rb
facount		facount
faheader		faheader
faheaderline		faheaderline
faseq		faseq
fasta2fastq.pl		fasta2fastq.pl
fastg2graph.py		fastg2graph.py
fileconverter.pl		fileconverter.pl
find_circular_contigs.py		find_circular_contigs.py
fqcount		fqcount
fqheader		fqheader
fxrename.pl		fxrename.pl
geneiousTableToSequin.pl		geneiousTableToSequin.pl
getFeaturesRange.rb		getFeaturesRange.rb
gff2fasta.pl		gff2fasta.pl
gff2seqfeatrues.py		gff2seqfeatrues.py
gffParser.pl		gffParser.pl
ko2fasta.py		ko2fasta.py
ko2product.py		ko2product.py
ncbi_fetch.pl		ncbi_fetch.pl
nstat		nstat
pair.pl		pair.pl
pam-identifier.rb		pam-identifier.rb
phage_genome_plotter.py		phage_genome_plotter.py
phage_genome_plotter2.py		phage_genome_plotter2.py
plot_gff.py		plot_gff.py
rbhb.sh		rbhb.sh
revcomp		revcomp
rgrep		rgrep
sam2bam		sam2bam
searchMHC.pl		searchMHC.pl
searchMappedPairs.py		searchMappedPairs.py
separate_connected_components.py		separate_connected_components.py
seqFilter.pl		seqFilter.pl
seqstats		seqstats
split_multifasta_into_single_files.pl		split_multifasta_into_single_files.pl
split_seq_index.pl		split_seq_index.pl
unshuffleFasta.pl		unshuffleFasta.pl