26 projects
ruranges-py
None
pyranges1
GenomicRanges for Python.
pyrle
Numeric run length encoding for Python.
ruranges
None
epic2
Ultraperformant ChIP-Seq broad peak/domain finder.
sorted-nearest
Find nearest intervals.
ncls
A fast interval tree-like implementation in C, wrapped for the Python ecosystem.
bamread
Read bam files quickly into dataframes in Python
pyranges
GenomicRanges for Python.
poranges
bwread
Read bigwig files into Python data science formats.
pyranges-db
Database add-on for PyRanges.
piedpiper
Debug context manager for chained commands.
bioepic
Chip-Seq broad peak/domain finder.
sphinx-autorun-ebs
Sphinx extension autorun
clustertree
Clustertrees.
kerneltree
Ultrafast interval tree implementation.
kg
Access KEGG from the command line.
snpflip
Report reverse and ambiguous strand SNPs.
hdose
Harmonize exposure, outcome and dosage for Mendelian Randomization.
triform2
Improved sensitivity, specificity and control of false discovery rates in ChIP-Seq peak finding.
ebs
Various utils I use in more than one script/lib
goverlap
Powerful ontology term enrichment analyzer for the command line
biomartian
Access BioMart from the command line.
godb
A set of annotation maps describing most of the Gene Ontology.
widediaper
Simple, stable, easily debuggable R/Python piping
