GitHub - Duke-GCB/majoros-python-utils: Majoros lab python modules and scripts

This branch is 6 commits ahead of bmajoros/python:master.

Name	Name	Last commit message	Last commit date
Latest commit hlapp Increments version so pip --upgrade will pick it up May 24, 2024 26424a1 · May 24, 2024 History 87 Commits
Bed3Record.py	Bed3Record.py	update	Oct 15, 2021
Bed6Record.py	Bed6Record.py	update	Oct 15, 2021
BedGene.py	BedGene.py	update	Oct 15, 2021
BedGeneReader.py	BedGeneReader.py	update	Oct 15, 2021
BedReader.py	BedReader.py	update	Oct 15, 2021
CigarOp.py	CigarOp.py	update	May 7, 2021
CigarString.py	CigarString.py	update	Sep 14, 2020
Codon.py	Codon.py	update	May 2, 2017
CodonIterator.py	CodonIterator.py	update	Oct 15, 2021
ConfigFile.py	ConfigFile.py	Fixes KeyError if key not in dictionary	May 24, 2024
DataFrame.py	DataFrame.py	update	May 7, 2021
DataFrameRow.py	DataFrameRow.py	update	May 7, 2021
EssexNode.py	EssexNode.py	update	Mar 17, 2020
EssexParser.py	EssexParser.py	update	Mar 17, 2020
EssexScanner.py	EssexScanner.py	update	Oct 27, 2016
EssexToken.py	EssexToken.py	update	Oct 27, 2016
Exon.py	Exon.py	update	Dec 9, 2017
FastaReader.py	FastaReader.py	update	Oct 15, 2021
FastaWriter.py	FastaWriter.py	update	Oct 15, 2021
Fastb.py	Fastb.py	update	Oct 15, 2021
FastbTrack.py	FastbTrack.py	update	Oct 15, 2021
FastqReader.py	FastqReader.py	update	Oct 15, 2021
Fisher2x2.py	Fisher2x2.py	update	Oct 15, 2021
GFF3Parser.py	GFF3Parser.py	update	Oct 15, 2021
Gene.py	Gene.py	update	Jun 8, 2020
GffTranscriptReader.py	GffTranscriptReader.py	update	Dec 9, 2017
Integer.py	Integer.py	update	Oct 27, 2016
Interval.py	Interval.py	update	Jul 19, 2019
MatrixMarket.py	MatrixMarket.py	update	Feb 14, 2023
NgramIterator.py	NgramIterator.py	NgramIterator.py	Jan 16, 2017
Pipe.py	Pipe.py	update	Feb 14, 2023
ProgramName.py	ProgramName.py	update	Oct 15, 2021
Rex.py	Rex.py	update	Oct 15, 2021
SamMDtagParser.py	SamMDtagParser.py	update	Oct 15, 2021
SamReader.py	SamReader.py	update	Oct 15, 2021
SamRecord.py	SamRecord.py	update	Oct 15, 2021
Shuffler.py	Shuffler.py	update	Oct 15, 2021
SlurmWriter.py	SlurmWriter.py	update	Feb 14, 2023
SmithWaterman.py	SmithWaterman.py	update	Jul 19, 2019
Stan.py	Stan.py	update	Jun 3, 2020
StanParser.py	StanParser.py	update	Jun 3, 2020
Strand.py	Strand.py	update	Oct 15, 2021
SumLogProbs.py	SumLogProbs.py	update	Nov 2, 2016
SummaryStats.py	SummaryStats.py	update	May 7, 2021
TempFilename.py	TempFilename.py	new-python-class.py	Oct 8, 2016
Transcript.py	Transcript.py	update	Dec 9, 2017
Translation.py	Translation.py	update	Dec 9, 2017
__init__.py	__init__.py	update	Oct 15, 2021
essex-pretty-print.py	essex-pretty-print.py	update	Jan 4, 2019
extract-gaa.py	extract-gaa.py	update	Oct 8, 2016
fastb-lengths.py	fastb-lengths.py	update	Oct 27, 2016
get-SNP-IDs.py	get-SNP-IDs.py	update	Oct 8, 2016
hello-world.py	hello-world.py	RegEx.py	Oct 26, 2016
make-bam-slurms.py	make-bam-slurms.py	update	Oct 8, 2016
make-fastqc-slurms.py	make-fastqc-slurms.py	update	Oct 20, 2015
make-star-slurms.py	make-star-slurms.py	update	Oct 20, 2015
new-python-class.py	new-python-class.py	RegEx.py	Oct 26, 2016
parse-stan.py	parse-stan.py	update	Sep 3, 2019
parse-vcf.py	parse-vcf.py	update	Jul 19, 2019
popstar-step1.py	popstar-step1.py	update	Oct 20, 2015
popstar-step2.py	popstar-step2.py	update	Oct 20, 2015
random-dna.py	random-dna.py	update	Oct 27, 2016
rank-variants.py	rank-variants.py	update	Oct 20, 2015
reverse.py	reverse.py	update	Jul 19, 2019
setup.py	setup.py	Increments version so pip --upgrade will pick it up	May 24, 2024
sort-matrixmarket.py	sort-matrixmarket.py	update	Sep 14, 2020
summarize-stan.py	summarize-stan.py	update	Sep 3, 2019
template.py	template.py	update	Feb 14, 2023
test-bed.py	test-bed.py	update	Oct 27, 2016
test-essex.py	test-essex.py	update	Oct 27, 2016
test-fasta-reader.py	test-fasta-reader.py	RegEx.py	Oct 26, 2016
test-fastb.py	test-fastb.py	update	Oct 27, 2016
test-pipe.py	test-pipe.py	update	Oct 27, 2016
test-transcript-reader.py	test-transcript-reader.py	update	Jun 8, 2020