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pgm-umi-pipeline

phipseq_external

plotly.py

An interactive, browser-based graphing library for Python :sparkles:

pm

package managers visualization

publib

Produce publication-level quality images on top of Matplotlib

pvac-seq

A cancer immunotherapy pipeline

pyro-cov

Pyro models of SARS-CoV-2 variants

pytools

some general useful python tools for genomics

pyvenn

Python module for plotting Venn diagrams of 2..6 sets

recon

Software and test files for Recon: Reconstruction of Estimated Communities from Observed Numbers

repitope

Epitope immunogenicity prediction through in silico TCR-peptide contact potential profiling.

rtcr

A pipeline for complete and accurate recovery of TCR repertoires from high throughput sequencing data.

scienceplots

Matplotlib styles for scientific plotting

scikit-learn-doc-zh

scikit-learn（sklearn） 官方文档中文版

scrapy-redis

Redis-based components for Scrapy.

shadowsocks-android

A shadowsocks client for Android

shadowsocks-panel

A powerful Shadowsocks management system

shap

A game theoretic approach to explain the output of any machine learning model.

simu_ngs

NGS simu

snp-deep-learning

srapy

SRA python tools

stackedbargraph

stackedBarGraph

tcr

tcR: an R package for immune receptor repertoire advanced data analysis.

tcr-dist

Software tools for the analysis of epitope-specific T cell receptor (TCR) repertoires (scroll down for the README)

tracer

TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data

trigs

A collection of bioinformatics tools for sequence analysis, with an emphasis on Next-Generation Sequencing and Rep-Seq.

variationanalysis

This repository holds the companion project to Goby3, used to train and evaluate deep learning models to call variations. This repository contains the Matcha framework to help train and evaluate deep learning models trained with semi-simulation. See docs below for details.

variety

vdjtools

Post-analysis of immune repertoire sequencing data

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