amuralle

HERVx

Pipeline to characterize Human Endogenous Retrovirus (HERV) expression

Higgs_Boson_Plan

discord-bot-boilerplate

Python 3.4+ Discord bot boilerplate project

bedtoolsr

R package wrapping bedtools

RiboDetector

Accurate and rapid RiboRNA sequences Detector based on deep learning

Pathonoia

IRIS

IRIS: Isoform peptides from RNA splicing for Immunotherapy target Screening

woltka

Woltka: a versatile meta'omic data classifier

SnpEff

FastQC

A quality control analysis tool for high throughput sequencing data

UMI-tools

Tools for handling Unique Molecular Identifiers in NGS data sets

RNA-Seq-saturation-curve

RNA-Seq Saturation Curve

py-spy

Sampling profiler for Python programs

guideseq

Analysis pipeline for the GUIDE-seq assay.

preseq

Software for predicting library complexity and genome coverage in high-throughput sequencing.

SNAF

Splicing Neo Antigen Finder (SNAF) is an easy-to-use Python package to identify splicing-derived tumor neoantigens from RNA sequencing data, it further leverages both deep learning and hierarchical Bayesian models to prioritize certain candidates for experimental validation

mhcflurry

Peptide-MHC I binding affinity prediction

somatic-combiner

HLAscan

TrimGalore

A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data

gridss

GRIDSS: the Genomic Rearrangement IDentification Software Suite

ScanIndel

The integrated pipeline for Indel detection

datasets

🤗 The largest hub of ready-to-use datasets for ML models with fast, easy-to-use and efficient data manipulation tools

werf

A solution for implementing efficient and consistent software delivery to Kubernetes facilitating best practices.

TCRpair

Prediction of TCR pairing