GitHub - jhbadger/scripts: Collection of (mostly bioinformatics) scripts that I use in day-to-day work

Branches Tags

Name		Name	Last commit message	Last commit date
Latest commit History 747 Commits
AAI.rb		AAI.rb
ANI.pl		ANI.pl
Blast.rb		Blast.rb
BlastXMLmerge.py		BlastXMLmerge.py
Btab.rb		Btab.rb
CDP1802.rb		CDP1802.rb
Chooser.rb		Chooser.rb
Cluster.rb		Cluster.rb
Codon.rb		Codon.rb
CodonBias.rb		CodonBias.rb
ColorGradient.rb		ColorGradient.rb
Colors.rb		Colors.rb
DownloadGB.pl		DownloadGB.pl
GA.rb		GA.rb
GBfindOverlaps		GBfindOverlaps
GOS.rb		GOS.rb
Gff.pm		Gff.pm
GreenGenes.rb		GreenGenes.rb
Grid.rb		Grid.rb
Histogram.rb		Histogram.rb
KarlinBias.rb		KarlinBias.rb
LZclusterbySite		LZclusterbySite
MEPipeMakeClustersFromDNA		MEPipeMakeClustersFromDNA
McCrowTree.rb		McCrowTree.rb
Mothur.rb		Mothur.rb
RogerBlast.rb		RogerBlast.rb
Silva.rb		Silva.rb
Stats.rb		Stats.rb
SuffixArray.rb		SuffixArray.rb
Taxonomy.rb		Taxonomy.rb
TigrGenBank.rb		TigrGenBank.rb
WOA.rb		WOA.rb
ZFile.rb		ZFile.rb
abundantKrakenLabels		abundantKrakenLabels
add16SRogersSpreadsheet		add16SRogersSpreadsheet
addBangLang		addBangLang
addFastaAnnotation		addFastaAnnotation
addMappingIsotigs		addMappingIsotigs
addNonRedundantGB		addNonRedundantGB
addOtuInfo100MostWanted		addOtuInfo100MostWanted
addRPKMOrfAnnotationTab.jl		addRPKMOrfAnnotationTab.jl
addSpeciesTaxonomy		addSpeciesTaxonomy
addStrainTaxonomy		addStrainTaxonomy
addTreePhylaColor		addTreePhylaColor
addqTreeInfo		addqTreeInfo
alertTime		alertTime
alg2transfac		alg2transfac
aliasFasta		aliasFasta
aliasNewick		aliasNewick
alignFromBtab		alignFromBtab
alignHmm		alignHmm
alignReferencePhylodb		alignReferencePhylodb
alignVariation		alignVariation
alignmentSummary		alignmentSummary
alphaNum		alphaNum
analyzeCombinedComboGos		analyzeCombinedComboGos
annotateContigsBtab		annotateContigsBtab
annotateStephaneVenn		annotateStephaneVenn
annotation-compare		annotation-compare
arb2fasta		arb2fasta
archiveProject		archiveProject
assembleSynCassettes		assembleSynCassettes
assemblyStats		assemblyStats
autoFindTrees		autoFindTrees
azw2mobi		azw2mobi
backAlign		backAlign
bactBlastCluster		bactBlastCluster
badgerBtab		badgerBtab
bam2unmappedfq		bam2unmappedfq
bamKraken		bamKraken
bamSeqOverlap		bamSeqOverlap
barbHMPClusterSpreadsheet		barbHMPClusterSpreadsheet
batchCdhit		batchCdhit
bed2geneCoords		bed2geneCoords
bed2gtf		bed2gtf
bedOverlap		bedOverlap
bestHmmTbl		bestHmmTbl
bestRecip		bestRecip
bigCat		bigCat
bigCp		bigCp
bigLS		bigLS
bigMv		bigMv
bigRm		bigRm
binAlignPercentIdents		binAlignPercentIdents
binBamReads		binBamReads
binBarcodedFasta		binBarcodedFasta
binBlastMatch		binBlastMatch
binPsoriasis		binPsoriasis
blast-contigs		blast-contigs
blast2Combo		blast2Combo
blast2GosTable		blast2GosTable
blast2table		blast2table
blastClusterStruct		blastClusterStruct
blastFindOnlyIn		blastFindOnlyIn
blastLocalAllVsAll		blastLocalAllVsAll
blastSummary		blastSummary
blastSummaryPercentIdentity		blastSummaryPercentIdentity
blasthitCount		blasthitCount
blastm82bed		blastm82bed
btab		btab