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rnaseq_tutorial
Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.GenVisR
Genome data visualizationspVACtools
regtools
Integrate DNA-seq and RNA-seq data to identify mutations that are associated with regulatory effects on gene expression.rnabio.org
website for the rnaseq coursepVAC-Seq
DEPRECATED. This tool has been superseded by https://github.com/griffithlab/pVACtoolscivic-client
Web client for CIViC: Clinical Interpretations of Variants in CancerDeepSVR
pmbio.org
Website for the precision medicine workshopcivic-server
Backend Server for CIViC Projectrnaseq_tutorial_wiki
The wiki repo, with pull request enabled, for the rnaseq_tutorialVAtools
A set of tools to annotate VCF files with expression and readcount dataconvert_zero_one_based
Python CLI to convert between zero and one based genomic coordinate systemscivic-v2
CIViC is an open access, open source, community-driven web resource for Clinical Interpretation of Variants in Cancergenviz.org
Genomic data interpretation and visualization Workshopigvnav
griffithlab.org
Griffith lab research websiternaseq_tutorial_v1
Archive of original RNAseq.wiki tutorial that accompanied PLoS Comp Bio papercivic-meeting
Repo for advertising and organizing CIViC unconference/meeting activitiescivicpy
A python interface for the CIViC db applicationcivic-docs
Source code for the civicdb.org docsdocm
Rails frontend to The Genome Institute's database of curated mutations (DoCM)anchor_huiming_etal_2023
Code for computational workflows and analyses relating to "Computational prediction of MHC anchor locations guide neoantigen identification and prioritization"gen-viz-lectures
lectures for genviz.org workshop kept separate for performanceanalysis-wdls
Early stages of converting genome/analysis-workflows from CWL to WDLaml31
Resource website for the AML31 publicationimmuno_gcp_wdl_local
Tutorial to run immuno.wdl on Google CloudBGA-interface-projects
Monorepo for user-interface projects of the Bioinformatics and Genome Analytics group at MGIneoag_protocol
Protocol for end-to-end neoantigen analysis and vaccine design for a single patientCRC_biomarkers
Repo for analysis of CRC biomarkers from stool samplescloud-workflows
Infrastructure and tooling required to get genomic workflows running in the cloudcivic-panel
Tools for selecting targets for and designing panel for various assaysast17
CSHL Advanced Sequencing Technologies and Applications 2017 Course Directorycivic2clinvar
extraction of CIViC variants into the clinvar submission formatbioinformatic-workflows
CWL workflows for bioinformatic analysisLove Open Source and this site? Check out how you can help us