irliampa

irliampa's Stars

• broadinstitute/gatk

  Official code repository for GATK versions 4 and up

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• davidliwei/awesome-CRISPR

  List of software/websites/databases/other stuff for genome engineering

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• GoekeLab/bioinformatics-workflows

  minimal example implementations for bioinformatics workflow managers

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• genome-in-a-bottle/giab_data_indexes

  This repository contains data indexes from NIST's Genome in a Bottle project.

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• ga4gh/benchmarking-tools

  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls

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• hbctraining/DGE_workshop_salmon_online

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• rdboyes/forester

  An R package for creating publication-ready forest plots.

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• GenomicsDB/GenomicsDB

  High performance data storage for importing, querying and transforming variants.

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• TileDB-Inc/TileDB-VCF

  Efficient variant-call data storage and retrieval library using the TileDB storage library.

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• jbloom/SARS-CoV-2_PRJNA612766

  Analysis of early Wuhan SARS-CoV-2 sequences from deleted SRA BioProject PRJNA612766

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• Clinical-Genomics/genmod

  Annotate models of genetic inheritance patterns in variant files (vcf files)

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• neurogenomics/rworkflows

  Continuous integration for R packages. 🔀 Automates testing ✅, documentation website building 📦, & containerised deployment 🐳.

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• odelaneau/shapeit5

  Segmented HAPlotype Estimation and Imputation Tool

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• danrlu/nextflow_cheatsheet

  Tips for Nextflow and cheatsheet for channel operation

  697110

• JinmiaoChenLab/Rphenograph

  Rphenograph: R implementation of the PhenoGraph algorithm

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• danlwarren/RWTY

  R We There Yet?

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• Kumquatum/GWENA

  Gene Co-expression Network analysis pipeline

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• genomic-medicine-sweden/nallo

  An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.

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• jtleek/svaseq

  Analysis for svaseq paper

  194711

• ACAD-UofA/Guide-to-manipulating-PLINK-EIG-and-VCF-files

  A guide to manipulating genotypic data across the common formats: VCF, EIGENSTRAT and PLINK (PACKEDPED) files. Includes how to convert between formats, merge datasets or subset by individuals in each of the formats.

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• ga4gh/quality-control-wgs

  Home for the GA4GH Quality Control of Whole Genome Sequencing metrics and reference implementations

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• Clinical-Genomics-Lund/gens

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• c-BIG/NPM-sample-qc

  reference implementation of GA4GH WGS Quality Control Standards

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• drjingma/netgsa

  Network-based Gene Set Analysis

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• fa2k/raredisease-configs

  Config and setup to run nf-core/raredisease pipeline

  Language:Nextflow81

• LiuzLab/AI_MARRVEL

  AI-MARRVEL (AIM) is an AI system for rare genetic disorder diagnosis

  Language:Python84376

• ga4gh/ga4gh-starter-kit-drs

  Open, extensible server implementation of the GA4GH Data Repository Service (DRS) specification

  Language:Java411247

• icgc-argo-workflows/dnaalnqc

  ICGC-ARGO workflow for DNA-Seq alignment QC

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• oskarvid/happy-snake

  Run hap.py with snakemake

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• oskarvid/ServerLoad

  A simple server load bash and R script for graphing CPU, disk and RAM usage

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