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bamutil

baynorm_papercode

code for producing figures in bayNorm

bcbio-nextgen

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis

beatrice

Pipeline Assembler For The Common Workflow Language (CWL)

beautiful-visualization-with-r

《R语言数据可视化之美》配套代码

bedtk

A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)

bedtools2

bedtools - the swiss army knife for genome arithmetic

benchmarking.error.correction

This is the GitHub repository for our benchmarking study "Benchmarking of computational error-correction methods for next-generation sequencing via unique molecular identifiers". Please follow to the repository's wiki for more information and details on how this repository is connected to the paper.

bigblastparser

Parse (very big) NCBI BLAST xml output files (very fast) into an SQLite DB.

bioinformatics

this is a hub for bioinformatics

biopartsdb

BioPartsDB: a DNA synthesis workflow system for synthetic biology

biosequences.jl

Biological sequences for the julia language

bioservices.jl

Julia interface to APIs for various bio-related web services

blasr

This is an unsupported fork of the PacBio blasr aligner. It contains my (very beta) optimizations and new functionality. It may disappear at any time.

blasr-1

BLASR: The PacBio® long read aligner

bonsai

Bonsai: Fast, flexible taxonomic analysis and classification

brahmanangusassemblyscripts

butler

Butler is a framework for running scientific workflows on public and academic clouds.

bwa-mem2

The next version of bwa-mem

bwa-meth

fast and accurate alignment of BS-Seq reads

cadd-sv

CADD-SV – a framework to score the effect of structural variants

cancer_cell_evolution

tugHall: a simulator of cancer cell evolution based on the hallmarks of cancer, linked to the mutational states of tumor-related genes. This is a script in R to simulate the cancer cell evolution in the framework of Hallmarks model proposed by prof. Mamoru Kato.

capice

capture2.0_sgrna_design

cardelino

catch

A package for designing compact and comprehensive capture probe sets.

cdna_cupcake

Miscellaneous collection of Python and R scripts for processing Iso-Seq data

cellbrowser

Python pipeline and Javascript scatter plot library for single-cell datasets, http://cellbrowser.rtfd.org

cellector

cellector_app

R shiny App performing Genomics Guided Selection of Cancer In Vitro Models