BIOINFORMATICS BINARIES

This repository contains all binaries relevant to bioinfo work. Most originate from neptune:/users/tg/lpryszcz/bin

Name		Name	Last commit message	Last commit date
Latest commit History 511 Commits
python_modules		python_modules
teaching		teaching
#fastq2kmers.py#		#fastq2kmers.py#
.gitignore		.gitignore
BRH.py		BRH.py
FastaIndex.py		FastaIndex.py
LICENCE.txt		LICENCE.txt
README		README
README.md		README.md
SOLiD2Std.pl		SOLiD2Std.pl
SraTailor		SraTailor
TE_analysis.py		TE_analysis.py
a.out		a.out
abi2fastq.py		abi2fastq.py
annotated_chromosomes.py		annotated_chromosomes.py
archive_data_ont.sh		archive_data_ont.sh
augustus_gff2fasta.py		augustus_gff2fasta.py
backup_crg.sh		backup_crg.sh
bam2RNAediting.py		bam2RNAediting.py
bam2amplicons.py		bam2amplicons.py
bam2bigwig.py		bam2bigwig.py
bam2cnv.py		bam2cnv.py
bam2counts.py		bam2counts.py
bam2cov.py		bam2cov.py
bam2cov.py_bck		bam2cov.py_bck
bam2cov_multi_pool.py		bam2cov_multi_pool.py
bam2cov_pool.py		bam2cov_pool.py
bam2coverage.py		bam2coverage.py
bam2difference.py		bam2difference.py
bam2editing_penetrance.py		bam2editing_penetrance.py
bam2enhancers.py		bam2enhancers.py
bam2heterozygous.py		bam2heterozygous.py
bam2mitochondrial.py		bam2mitochondrial.py
bam2paternal.py		bam2paternal.py
bam2ploidy.py		bam2ploidy.py
bam2select.py		bam2select.py
bam2snps.py		bam2snps.py
bam2snps.ref.py		bam2snps.ref.py
bam2split.py		bam2split.py
bam2stats.py		bam2stats.py
bam2stats.sh		bam2stats.sh
bam2stranded.py		bam2stranded.py
bam2sv.py		bam2sv.py
bam2transcript_completeness.py		bam2transcript_completeness.py
bam2vcf.py		bam2vcf.py
barcode2fqname.py		barcode2fqname.py
bash_set_variables		bash_set_variables
bed2RNALfold.py		bed2RNALfold.py
bed2cnv.py		bed2cnv.py
bed2cnv_plot.py		bed2cnv_plot.py
bed2count_filter.py		bed2count_filter.py
bed2graph.py		bed2graph.py
bed2igv_batch.py		bed2igv_batch.py
bed2region.py		bed2region.py
bed2stats.py		bed2stats.py
bedGraphToBigWig		bedGraphToBigWig
bedcount2plot.py		bedcount2plot.py
blast2hits.py		blast2hits.py
blast2matrix.py		blast2matrix.py
blast2nohit.py		blast2nohit.py
blastout2identity.py		blastout2identity.py
blastout2profile.py		blastout2profile.py
blat		blat
blat2collapse.py		blat2collapse.py
boxplot.py		boxplot.py
brh.py		brh.py
bright.sh		bright.sh
clean_root.sh		clean_root.sh
clean_snap.sh		clean_snap.sh
combine_windows.py		combine_windows.py
composer		composer
composer.phar		composer.phar
contig2gc.py		contig2gc.py
coords2ordered.py		coords2ordered.py
counts2cnv.mean.py		counts2cnv.mean.py
counts2cnv.py		counts2cnv.py
coverage_graph.py		coverage_graph.py
coverage_track.py		coverage_track.py
csv2common.py		csv2common.py
csv2fasta.py		csv2fasta.py
csv2xls.py		csv2xls.py
cuffdiff2de.py		cuffdiff2de.py
decypher2bed.py		decypher2bed.py
deseq2annotate.py		deseq2annotate.py
deseq2de.py		deseq2de.py
docker-compose		docker-compose
dropbox-crg		dropbox-crg
du.sh		du.sh
duptree		duptree
embl2fasta.py		embl2fasta.py
embl2gb.py		embl2gb.py
embl2gff.pl		embl2gff.pl
embl2gtf.py		embl2gtf.py
embl2protein.py		embl2protein.py
ena_download_and_rename.py		ena_download_and_rename.py
exonerate		exonerate
exonerate2ptc.py		exonerate2ptc.py
exonerategff2gtf.py		exonerategff2gtf.py
fast52reads.py		fast52reads.py
fast5_to_fastq.py		fast5_to_fastq.py

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