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awk

:book: The AWK Programming Language (AWK 程序设计语言) 中文翻译, LaTeX 排版

beast-mcmc

Bayesian Evolutionary Analysis Sampling Trees

beast2

Bayesian Evolutionary Analysis by Sampling Trees

bioinformatics-training

Bioinformatics training resources

cafe

Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.

cgdsr

R-Based API for accessing the MSKCC Cancer Genomics Data Server (CGDS)

htseq

HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.

in-depth-ngs-data-analysis-course

Materials for 12-day course on analyzing RNA-Seq, ChIP-Seq and variant calling data.

intro-to-rnaseq-hpc-o2

This repository has teaching materials for a 2 and 3-day Introduction to RNA-sequencing data analysis workshop using the O2 Cluster

isoseq3

IsoSeq3 - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads

jellyfish

A fast multi-threaded k-mer counter

lachesis

The LACHESIS software, as described in Nature Biotechnology (http://dx.doi.org/10.1038/nbt.2727)

learn-bioinformatics

mummer

Mummer alignment tool

my_python

第一个测试

notebook

pacbiofileformats

Specifications for PacBio® native file formats

pasapipeline

PASA software

quickmerge

A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.

rna-seq-analysis

RNAseq analysis notes from Tommy Tang

rnaseq_tutorial

Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.

scripts

linux/R/perl/

scripts-1

scrna.seq.course

Analysis of single cell RNA-seq data course

smartdenovo

Ultra-fast de novo assembler using long noisy reads

snphylo

A pipeline to generate a phylogenetic tree from huge SNP data

star

RNA-seq aligner

supreme-octo-carnival

wtdbg2

A fuzzy Bruijn graph approach to long noisy reads assembly

zgtoolkits