mourisl

Lighter

Fast and memory-efficient sequencing error corrector

Rcorrector

Error correction for Illumina RNA-seq reads

T1K

T1K is a versatile methods to genotype highly polymorphic genes (e.g. KIR, HLA) with bulk or single-cell RNA-seq, WGS or WES data.

centrifuger

Classifier for metagenomic sequences using FM-index with run-block compressed BWT.

Rascaf

Scaffolding with RNA-seq read alignment

heatmapannot

Add color heatmap to seaborn heatmaps

chromap

Fast alignment and preprocessing of chromatin profiles

pvalannot

Add p-value annotation to the plot

mourisl.github.io

Tools

Random small scripts

centrifuger_evaluations

CLASS

Constraint-based Local Assembly and Selection of Splice variants

T1K_manuscript_evaluation

The scripts used in the T1K manuscript

poa

One partial order alignment implementation.

arcasHLA

Fast and accurate in silico inference of HLA genotypes from RNA-seq

bioconda-recipes

Conda recipes for the bioconda channel.

csvjoin

A python script that selects a key and columns from csv B and append that to csv file A . Require pandas.

DeepCAT

Deep Learning Method to Identify Cancer Associated TCRs - modified to output score for each CDR3

hihocoder

hlaproject

Rigorous benchmarking of HLA callers for RNA seq data

iSMART

Highly specific clustering of T cell receptor CDR3s

liulab-dfci.github.io

Know more about Shirley Liu lab at

misc

mixcr-rna-seq-paper

In silico data and tests

MultiJobSlurm

About how to submit multitple jobs to slrum

polyester

Bioconductor package "polyester", devel version. RNA-seq read simulator.

rascaf_paper_script

The scripts used in rascaf paper

ReadFormatter

The C++ class for extracting and concatenating segments from sequencing read

SAPPER

SAPPER -- call variance from ChIP-Seq directly

Spoon-Knife

This repo is for demonstration purposes only.