GitHub - sarahhcarl/Flychip: Scripts I've written to process genomic data (NGS, gene sets, microarrays) as part of my Ph.D. in the Russell lab / Flychip.

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Scripts I've written to process genomic data (NGS, gene sets, microarrays) as part of my Ph.D. in the Russell lab / Flychip.

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Name		Name	Last commit message	Last commit date
Latest commit History 40 Commits
DamID_analysis		DamID_analysis
FAIRE-seq_analysis		FAIRE-seq_analysis
enhancer_analysis		enhancer_analysis
matrix_scan		matrix_scan
prank_alignment		prank_alignment
README		README
R_dataframes.pl		R_dataframes.pl
STARR2bed.pl		STARR2bed.pl
add_strand.pl		add_strand.pl
bed2fasta_mel.pl		bed2fasta_mel.pl
bed2fasta_pse.pl		bed2fasta_pse.pl
bed2fasta_sim.pl		bed2fasta_sim.pl
bed2fasta_yak.pl		bed2fasta_yak.pl
csv2bed.pl		csv2bed.pl
deseq2wig.pl		deseq2wig.pl
getPhastCons.pl		getPhastCons.pl
get_chrom_sizes.pl		get_chrom_sizes.pl
gff2bed.pl		gff2bed.pl
make_bed_v2.pl		make_bed_v2.pl
psl_to_sgr.pl		psl_to_sgr.pl
relative_coords.pl		relative_coords.pl
site_density.pl		site_density.pl
site_density.pl~		site_density.pl~
wig2density.pl		wig2density.pl

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This README contains general information about the scripts found in my Flychip repo.

All scripts were written by me during my Ph.D. to process genome-wide data. They may not necessarily be the most efficient solution to a given problem!

Please see the wiki for an overview of my DamID analysis pipeline.

If you have any questions about any of the information here, feel free to contact me at sarahhcarl@gmail.com.