37 projects
mhctools
Python interface to MHC binding, presentation, immunogenicity, and antigen processing predictors
vaxrank
Mutant peptide ranking for personalized cancer vaccines
pirlygenes
Gene lists for cancer immunotherapy expression analysis
topiary
Predict cancer epitopes from cancer sequence data
mhcseqs
MHC sequence curation and binding groove extraction
hitlist
Curated mass spectrometry evidence for MHC ligand data from IEDB and CEDAR
mhcgnomes
Python library for parsing MHC nomenclature in the wild
pepdata
Immunological peptide datasets and amino acid properties
gtfparse
Parsing library for extracting data frames of genomic features from GTF files
golfy
Heuristic peptide pool optimization for ELISpot and other immunological assays
isovar
Determine mutant protein sequences from RNA using assembly around variants
varcode
Variant annotation in Python
pyensembl
Python interface to Ensembl reference genome metadata
weirdo
Metrics of immunological foreignness for candidate T-cell epitopes
tcrsift
T-cell receptor selection for TCR-T studies from antigen specific culture and scRNA/VDJ sequencing
datacache
Helpers for transparently downloading datasets
tsarina
Personalized cancer immunotherapy target selection from curated shared antigen data
serializable
Base class with serialization helpers for user-defined Python objects
sercol
Rich collection class with grouping and filtering helpers
fancyimpute
Matrix completion and feature imputation algorithms
parakeet
Runtime compiler for numerical Python.
msmhc
Looking for dark matter of the MHC ligandome in mass spectra
mutexp
Predict mutation-specific expression from DNA features
scalarmix
Scalar bimodal Gaussian mixture models
openvax_project_template
Project template for OpenVax Python projects
mhcnames
Python library for MHC nomenclature parsing
typechecks
Helper functions for runtime type checking
pepnet
Neural networks for amino acid sequences
knnimpute
k-Nearest Neighbor imputation
tinytimer
Tiny Python benchmarking library
censored_regression
Linear regression where some of the labels are lower bounds
epitopes
Python interface to IEDB and other immune epitope data
dsltools
Helpers for creating and traversing recursively nested data structures in Python.
TreeLike
Helpers for creating and traversing recursively nested data structures in Python.
shiver
A multi-threaded work queue for functions compiled with llvmpy
loopjit
Syntax, types, and codegen helpers for compiling loop-oriented numerical code to LLVM in Python.
moving_pictures
Create a movie from a sequence of images in Python (uses PIL and ffmpeg)
