zuber-bioinfo

zuber-bioinfo's Stars

• gear-genomics/indigo

  Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products

  Language:JavaScript327

• alizraksi/DepthOfCoveragePerInterval

  Calculate depth of coverage as GATK DepthOfCoverage -L does, but without merging intervals

  Language:Python31

• CERC-Genomic-Medicine/scripts

  Various scripts

  Language:Python42

• vidboda/MobiDetails

  WebApp for DNA variants interpretation

  Language:Python136

• miklafc/primerAnalyzer

  Simple tool written in python which helps user select correct primer sequences while doing the Sanger DNA sequencing

  Language:Python1

• lowepowerlab/protocols

  Lab protocols for the Lowe-Power lab (scroll down for table of contents Readme)

  63

• monarch-initiative/Squirls

  Interpretable prioritization of splice variants in diagnostic next-generation sequencing

  Language:Java154

• jodyphelan/pathogen-profiler

  This repository contains python classes and functions to quickly create a profiling tool for pathogen NGS data

  Language:Python1110

• gatk-workflows/gatk4-germline-snps-indels

  Workflows for germline short variant discovery with GATK4

  Language:wdl13356

• AndersenLab/VCF-kit

  VCF-kit: Assorted utilities for the variant call format

  Language:Python12625

• kevinblighe/ClinicalGradeDNAseq

  Automated next generation DNA sequencing analysis pipeline suited for clinical tests, with >99.9% sensitivity to Sanger sequencing at read-depth>18

  Language:Shell259

• Young-gonKim/SnackVar

  Language:Java82

• systemsomicslab/MsdialWorkbench

  Universal workbench incorporating msdial, msfinder, and mrmprobs

  Language:C#5717

• kmezhoud/bioCancer

  :cancer: :free: A Shiny App for Interactive Multi-OMICS Cancer Data Visualization and analysis

  Language:R205

• ACEnglish/usable_vcf

  Run multiple programs to check if a VCF is usable

  Language:Python91

• TheJacksonLaboratory/JAX-CNV

  Official code repository for JAX-CNV

  Language:C++122

• iqbal-lab-org/pandora

  Pan-genome inference and genotyping with long noisy or short accurate reads

  Language:C++11214

• google/deepvariant

  DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

  Language:Python3.3k731

• gavinha/TitanCNA

  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer

  Language:R9437

• mobidic/Captain-ACHAB

  Analysis Converter for Human who might Abhor Bioinformatics. A simple and useful interface to analysis of WES data for molecular diagnosis

  Language:Perl62

• mobidic/MobiCNV

  CNV analysis based on the depth of coverage of Illumina data

  Language:Python81

• mobidic/update_annovar_db

  scripts to automatically update ANNOVAR db

  Language:Python164

• ACEnglish/utmos

  Maximum-coverage algorithm for genomic variants

  Language:Python5

• OpenOmics/metamorph

  Metagenomics and Metatranscriptomics pipeline

  Language:Python51

• OpenOmics/brakerMake

  Snakemake pipeline for annotating with braker and adding functional information

  Language:Python1

• rstudio/renv

  renv: Project environments for R.

  Language:R1k155

• mulinlab/mulinlab-pip

  mulinlab bioinformatics pipelines for reproducible, efficient and convenient bioinformatics research.

  Language:HTML69

• vplagnol/ExomeDepth

  ExomeDepth R package for the detection of copy number variants in exomes and gene panels using high throughput DNA sequencing data.

  Language:C6727

• mulinlab/VarNote

  Fast and scalable variant annotation tool

  Language:Java309

• lima1/PureCN

  Copy number calling and variant classification using targeted short read sequencing

  Language:R13033