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xiongxu's repositories

HighPerformanceNGS

hight performance & useful tools for working with fastq and bam files

Language:C29 30

bam2bedGraph2

Extremely fast BAM depth calculation for WGS, exome, or targeted sequencing

Language:CMIT10 20

bamDraw

bam file visualization scheme

Language:CMIT6 30

hg19UCSC_canonical

hg19UCSC_canonical transcript/refSeq/symbol And the exons/CDS it contains

MIT2 20

redisAligner

NGS 36-mer perfect match sequecing aligner based on redis

Language:CMIT2 20

bamRadixSort

bam sort with radix algorithm

Language:CMIT1 2 1

InterVar

A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline

Language:PythonMIT1 20

RNAseqVis

RNAseq Visualization tools written by Perl

Language:PerlMIT1 20

vcf2vaf

calculate variant allele frequency from vcf file

MIT1 20

AffyPipe

an open-source pipeline for Affymetrix Axiom genotyping workflow on livestock species

Language:Python020

biotools

A list of useful bioinformatics resources

020

bwa

Burrow-Wheeler Aligner for pairwise alignment between DNA sequences

Language:CGPL-3.0020

d3-3.x-api-reference

An archive of the D3 3.x API Reference.

020

d3-shape

Graphical primitives for visualization, such as lines and areas.

Language:JavaScriptBSD-3-Clause020

DGTable.js

A Backbone+jQuery high-performance table for web-apps

Language:JavaScriptMIT020

hts-specs

Specifications of SAM/BAM and related high-throughput sequencing file formats

Language:TeX020

libBigWig

A C library for handling bigWig files

Language:CMIT020

mosdepth

fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing

Language:NimMIT020

networkD3

D3 JavaScript Network Graphs from R

Language:R020

opendht

A C++11 Distributed Hash Table implementation

Language:C++GPL-3.0020

samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

Language:CNOASSERTION010

sdsl-lite

Succinct Data Structure Library 3.0 (unstable, prerelease)

Language:C++NOASSERTION010

SeqMule

Automated human exome/genome variants detection from FASTQ files

Language:C++NOASSERTION020

single_file_libs

List of single-file C/C++ libraries.

000

starter-nodejs-rest

Starter for a Node.js REST Application using MongoDB and JSON Web Token

Language:JavaScriptMIT020

tadtool

TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.

Language:PythonMIT000

tracy

Basecalling, alignment, assembly and deconvolution of Sanger Chromatogram trace files

Language:C++BSD-3-Clause010

windows_batch_dsrc

Automatically fastq(.gz) (de)compression on windows

Language:MakefileMIT020

windowsNGSapp

pre-compiled windows NGS app

Language:PerlMIT020

xiongxu.github.io

Panda's blog

Language:JavaScriptMIT020