timknut

timknut's Stars

• nextflow-io/nextflow

  A DSL for data-driven computational pipelines

  Language:Groovy2.7k620

• biobootloader/wolverine

  Language:Python5.2k757

• bwa-mem2/bwa-mem2

  The next version of bwa-mem

  Language:C++71297

• brentp/smoove

  structural variant calling and genotyping with existing tools, but, smoothly.

  Language:Go23021

• amyko/clapper

  Composite Likelihood Approach to Pedigree Reconstruction

  Language:Shell5

• lh3/minimap2

  A versatile pairwise aligner for genomic and spliced nucleotide sequences

  Language:C1.8k404

• mbourgey/CBW_HTseq_module5

  CBW HT-seq workshop module 5 on SV variants calling

  Language:Shell23

• quinlan-lab/applied-computational-genomics

  Applied Computational Genomics Course at UU: Spring 2020

  Language:HTML936204

• brentp/goleft

  goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary

  Language:Go21324

• jalvz/depth-cover

  Fast Depth of Coverage Analyser (for BAM, BED files)

  Language:Java61

• mturchin20/bmass

  R package for 'Bayesian multivariate analysis of summary statistics' (Stephens Lab)

  Language:R91

• Unoqualsiasi/geno_imputation

  Code base for the Geno/Roslin imputation project

  Language:Shell3

• r-hub/proposal

  r-hub: the everything-builder the R community needs. This is the original r-hub proposal, as submitted to the R Consortium

  977

• Santy-8128/Minimac3

  Minimac3 is a low memory and computationally efficient implementation of the genotype imputation algorithms. Minimac3 is designed to handle very large reference panels in a more computationally efficient way with no loss of accuracy.

  Language:C++2812

• hall-lab/svtyper

  Bayesian genotyper for structural variants

  Language:Python12555

• arq5x/poretools

  a toolkit for working with Oxford nanopore data

  Language:Jupyter Notebook23990

• atks/vt

  A tool set for short variant discovery in genetic sequence data.

  Language:C1903

• FabianGrammes/cluster_pipelines

  Language:R53

• ssadedin/bpipe

  Bpipe - a tool for running and managing bioinformatics pipelines

  Language:Groovy22657

• jtleek/careerplanning

  A career planning guide.

  11923

• heejungshim/mvBIMBAM

  BIMBAM for genetic association analysis of multiple related phenotypes.

  Language:C++63

• StoreyLab/gcat

  This package has been renamed gcatest: https://github.com/StoreyLab/gcatest

  Language:R3

• tidyverse/readr

  Read flat files (csv, tsv, fwf) into R

  Language:R1k286

• torfinnnome/slurm-utils

  Random scripts we've implemented at our local Slurm based cluster.

  Language:Shell1

• ropensci/rentrez

  talk with NCBI entrez using R

  Language:R19538

• jtleek/genomicspapers

  The Leek group guide to genomics papers

  467173

• jtleek/rpackages

  R package development - the Leek group way!

  512287

• nariai/tigar2

  71

• deweylab/RSEM

  RSEM: accurate quantification of gene and isoform expression from RNA-Seq data

  Language:C++408118

• jokergoo/circlize

  Circular visualization in R

  Language:R959143