bioinfotools Goto Github PK

atropos

An NGS read trimming tool that is specific, sensitive, and speedy. (production)

bamsurgeon

tools for adding mutations to existing .bam files, used for testing mutation callers

bbmap

(Not Offical) BBMap short read aligner, and other bioinformatic tools.

bcftools

This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib

biomake

GNU-Make-like utility for managing builds and complex workflows

biscuit

BISuilfite-seq CUI Toolkit

blobology

Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome assembly data sets as a QC step

blobtools

Application for the visualisation of draft genome assemblies and general QC

bsvf

Bisulfite Sequencing Virus integration Finder

canu

A single molecule sequence assembler for genomes large and small

cdhit

Automatically exported from code.google.com/p/cdhit

complete-striped-smith-waterman-library

csvtk

A cross-platform, efficient, practical and pretty CSV/TSV toolkit in Golang

diamond

Accelerated BLAST compatible local sequence aligner.

eig

Eigen tools by Nick Patterson and Alkes Price lab

emboss

Unofficial mirror of the EMBOSS source

exportr2office

R package to easily export active graphs and statistical output to MS Office, Latex and HTML formats

fastp

A Fast and All-in-one Preprocessor for FastQ files

gce

GCE (genomic charactor estimator) is a bayes model based method to estimate the genome size ,genomic repeat content and the heterozygsis rate of the sequencing sample.

gclib

GCLib - Genomic C(++) library of reusable code for bioinformatics projects

historian

Reconstruction of phylogenetic insertion-deletion histories

kallisto

Near-optimal RNA-Seq quantification

lobstr-code

lobSTR: a short tandem repeat profiler for next generation sequencing data

macse

Investigation of methods of multiple alignment of the nucleotide sequences in accordance with the reading frame and a stop codon

mitobim

MITObim - mitochondrial baiting and iterative mapping

mosaik

reference-guided aligner for next-generation sequencing technologies

mvicuna

pandaseq

PAired-eND Assembler for DNA sequences

phase

Code and tests for the phase software

prml

Classical pattern recognition and machine learning algorithms implementations.