Buys de Barbanson's repositories
SingleCellMultiOmics
Tools which deal with multiple single cell measurements
plotting3dprinter
generate gcode which makes a 3d printer draw on paper
pysamiterators
Iterators for pysam
LogicsSandbox
Play with logic gates and retro computing components in this Javascript web application
MICS-Python
Python module to read MICS-4514 MICS-6814 metal oxide sensors
Wall-Clock
A large 3d printed digital wall clock with subscript digits and environmental sensors
AS5600
AS560 Micropython library for reading this magnetic sensor
atomium
Python macromolecular parsing (with .pdb/.cif/.mmtf parsing and production)
Barbanzonnetje
Project related to measuring air quality
clavert
Vertical, wireless, ergonomic split keyboard
FeatureImportance
Some experiments with sklearn feature importance
gimmemotifs
Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed installation instructions and usage examples.
hgvs
Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`
IWSS
Calculate a distance matrix based on a binary feature matrix with missing data
MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
pyflate
Pure Python zlib/gzip/bzip2 decompessor/bitstream dumper, plus additional utilities
pysam
Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.
SankeyFlow
Python package for creating Sankey flow diagrams in Matplotlib
SCICoNE
Single-cell copy number calling and event history reconstruction.
siCloneFitIO
This package contains a python interface for siCloneFit algorithm and visualization of the results. SiCloneFit is a Bayesian method for joint inference of tumor clones, clonal genotypes and clonal phylogeny from noisy SNV profile of single cells.
somalier
fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"
statannot
add statistical annotations (pvalue significance) on an existing boxplot generated by seaborn boxplot
TreeSeasons
Procedurally generate trees (Jupyter Notebook, Python / Javascript / HTML5)
velocyto.py
RNA velocity estimation in Python