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arcashla

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

bioconda-recipes

Conda recipes for the bioconda channel.

centrifuger

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

centrifuger_evaluations

chromap

Fast alignment and preprocessing of chromatin profiles

class

Constraint-based Local Assembly and Selection of Splice variants

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

heatmapannot

Add color heatmap to seaborn heatmaps

hihocoder

hlaproject

Rigorous benchmarking of HLA callers for RNA seq data

ismart

Highly specific clustering of T cell receptor CDR3s

jcvi-summer-2014

The programs and scripts written during the 2014 summer internship in JCVI

lighter

Fast and memory-efficient sequencing error corrector

lighter_paper

Lighter's paper

liulab-dfci.github.io

Know more about Shirley Liu lab at

misc

mixcr-rna-seq-paper

In silico data and tests

mourisl.github.io

multijobslurm

About how to submit multitple jobs to slrum

poa

An inefficient partial order alignment implementation.

polyester

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

pvalannot

Add p-value annotation to the plot

rascaf

Scaffolding with RNA-seq read alignment

rascaf_paper_script

The scripts used in rascaf paper

rcorrector

Error correction for Illumina RNA-seq reads

rcorrector_paper_script

The scripts and commands used in the rcorrector 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.