simexin

simexin's Stars

• ekg/alignment-and-variant-calling-tutorial

  basic walk-throughs for alignment and variant calling from NGS sequencing data

  21064

• nextflow-io/nextflow

  A DSL for data-driven computational pipelines

  Language:Groovy2.8k643

• openwdl/wdl

  Workflow Description Language - Specification and Implementations

  783306

• lh3/Jellyfish

  A fast multi-threaded k-mer counter

  Language:C++34

• lh3/tabtk

  Toolkit for processing TAB-delimited format

  Language:C5912

• lh3/wgsim

  Reads simulator

  Language:C26790

• WGLab/icages

  iCAGES (integrated CAncer GEnome Score) is an effective tool for prioritizing cancer driver genes for a patient

  Language:Perl147

• umich-brcf-bioinf/Connor

  Deduplication based on custom inline DNA barcodes.

  Language:Python215

• dellytools/delly

  DELLY2: Structural variant discovery by integrated paired-end and split-read analysis

  Language:C++451138

• igsr/1000Genomes_data_indexes

  The index files for sequence and other data created for the 1000 Genomes project and the International Genome Sample Resource

  4212

• JohnLonginotto/SeQC

  SQL databases from BAM/SAM files with a focus on QC.

  Language:Python22

• arauchfuss/Simple-Comic

  OS X comic viewer

  Language:Objective-C1.1k225

• Kennedy-Lab-UW/Duplex-Sequencing

  Language:Python5734

• biocommons/uta

  Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; available as a docker image

  Language:Python6226

• ericminikel/minimal_representation

  Convert genetic variants to minimal representation

  Language:Python237

• macarthur-lab/clinvar

  This repo provides tools to convert ClinVar data into a tab-delimited flat file, and also provides that resulting tab-delimited flat file.

  Language:Python12255

• gokceneraslan/awesome-deepbio

  A curated list of awesome deep learning applications in the field of computational biology

  1.9k314

• jamescasbon/PyVCF

  A Variant Call Format reader for Python.

  Language:Python408200

• lh3/bwa

  Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)

  Language:C1.6k555

• Jamesits/proxifier-profiles

  My Proxifier profiles

  53680

• hmsrc/user-training

  HMS Research Computing User Training

  Language:Jupyter Notebook9024

• viljoviitanen/setup-simple-pptp-vpn

  This is a very old repo, and a script that used to work years ago. Please find a newer vpn setup.

  Language:Shell705237

• deeptools/deepTools

  Tools to process and analyze deep sequencing data.

  Language:Python691212

• hall-lab/speedseq

  A flexible framework for rapid genome analysis and interpretation

  Language:C315117

• etal/cnvkit

  Copy number variant detection from targeted DNA sequencing

  Language:Python565167

• chapmanb/bcbb

  Incubator for useful bioinformatics code, primarily in Python and R

  Language:Python612242

• arq5x/bedtools-protocols

  Language:CSS7824

• lh3/seqtk

  Toolkit for processing sequences in FASTA/Q formats

  Language:C1.4k307

• simexin/seqtk

  Toolkit for processing sequences in FASTA/Q formats

  Language:C1

• amaas/stanford_dl_ex

  Programming exercises for the Stanford Unsupervised Feature Learning and Deep Learning Tutorial

  2.6k1.6k