Ecosyste.ms: Awesome
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Projects in Awesome Lists by griffithlab
A curated list of projects in awesome lists by griffithlab .
https://github.com/griffithlab/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.
Last synced: 14 Oct 2024
https://github.com/griffithlab/regtools
Integrate DNA-seq and RNA-seq data to identify mutations that are associated with regulatory effects on gene expression.
Last synced: 12 Nov 2024
https://github.com/griffithlab/pvac-seq
DEPRECATED. This tool has been superseded by https://github.com/griffithlab/pVACtools
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic-client
Web client for CIViC: Clinical Interpretations of Variants in Cancer
cancer cancer-genomics civic front-end-framework javascript nci-itcr variants
Last synced: 12 Nov 2024
https://github.com/griffithlab/pmbio.org
Website for the precision medicine workshop
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic-server
Backend Server for CIViC Project
backend-server cancer cancer-genomics civic nci-itcr ruby variants
Last synced: 12 Nov 2024
https://github.com/griffithlab/vatools
A set of tools to annotate VCF files with expression and readcount data
Last synced: 12 Nov 2024
https://github.com/griffithlab/rnaseq_tutorial_wiki
The wiki repo, with pull request enabled, for the rnaseq_tutorial
Last synced: 12 Nov 2024
https://github.com/griffithlab/convert_zero_one_based
Python CLI to convert between zero and one based genomic coordinate systems
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic-v2
CIViC is an open access, open source, community-driven web resource for Clinical Interpretation of Variants in Cancer
biocuration cancer cancer-genomics nci-itcr variant-curation variants
Last synced: 12 Nov 2024
https://github.com/griffithlab/genviz.org
Genomic data interpretation and visualization Workshop
Last synced: 12 Nov 2024
https://github.com/griffithlab/griffithlab.org
Griffith lab research website
Last synced: 12 Nov 2024
https://github.com/griffithlab/rnaseq_tutorial_v1
Archive of original RNAseq.wiki tutorial that accompanied PLoS Comp Bio paper
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic-meeting
Repo for advertising and organizing CIViC hackathon/meeting activities
civic civic-meetings curation hackathon
Last synced: 12 Nov 2024
https://github.com/griffithlab/civicpy
A python interface for the CIViC db application
Last synced: 12 Nov 2024
https://github.com/griffithlab/anchor_huiming_etal_2023
Code for computational workflows and analyses relating to "Computational prediction of MHC anchor locations guide neoantigen identification and prioritization"
Last synced: 12 Nov 2024
https://github.com/griffithlab/docm
Rails frontend to The Genome Institute's database of curated mutations (DoCM)
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic-docs
Source code for the civicdb.org docs
Last synced: 12 Nov 2024
https://github.com/griffithlab/gen-viz-lectures
lectures for genviz.org workshop kept separate for performance
Last synced: 12 Nov 2024
https://github.com/griffithlab/aml31
Resource website for the AML31 publication
Last synced: 12 Nov 2024
https://github.com/griffithlab/neoag_protocol
Protocol for end-to-end neoantigen analysis and vaccine design for a single patient
Last synced: 12 Nov 2024
https://github.com/griffithlab/bga-interface-projects
Monorepo for user-interface projects of the Bioinformatics and Genome Analytics group at MGI
Last synced: 12 Nov 2024
https://github.com/griffithlab/bioinformatic-workflows
CWL workflows for bioinformatic analysis
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic-panel
Tools for selecting targets for and designing panel for various assays
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic2clinvar
extraction of CIViC variants into the clinvar submission format
Last synced: 12 Nov 2024
https://github.com/griffithlab/ast17
CSHL Advanced Sequencing Technologies and Applications 2017 Course Directory
Last synced: 12 Nov 2024
https://github.com/griffithlab/crc_biomarkers
Repo for analysis of CRC biomarkers from stool samples
Last synced: 12 Nov 2024
https://github.com/griffithlab/htlv_integration_sites
HTLV-1 integration site analysis notes and scripts
Last synced: 12 Nov 2024
https://github.com/griffithlab/usp7_scripts
Analysis collaboration with Albert Kim lab - impact of USP7 knockout on splicing
Last synced: 12 Nov 2024
https://github.com/griffithlab/sf3b1_scripts
Code for alternative splicing analysis of SF3B1 knockdown vs control replicates
Last synced: 12 Nov 2024
https://github.com/griffithlab/saturation-mutagenesis-website
Companion website to the saturation mutagenesis toolkit
Last synced: 12 Nov 2024
https://github.com/griffithlab/mcl_project
Scripts used for the MCL data pipeline
Last synced: 12 Nov 2024
https://github.com/griffithlab/toil_aws_setup
Instructions for setting up to run Toil on AWS
Last synced: 12 Nov 2024
https://github.com/griffithlab/pvac-seq-client
browser client for the pVAC-Seq project
Last synced: 12 Nov 2024
https://github.com/griffithlab/regtools-cwl
cwl workflow for running regtools
Last synced: 12 Nov 2024
https://github.com/griffithlab/saturation-mutagenesis-viz
Shiny app for visualizing functional data from saturation mutagenesis assays (TP53, SMAD4, etc.)
Last synced: 12 Nov 2024
https://github.com/griffithlab/humo
Analysis repo for the humanized mouse project
Last synced: 12 Nov 2024
https://github.com/griffithlab/jekyll_template
Work to enhance existing jekyll sites
Last synced: 12 Nov 2024
https://github.com/griffithlab/precision_medicine_kisc
This is the precision medicine KISC site/lab manual
Last synced: 12 Nov 2024
https://github.com/griffithlab/genvisr.org
Companion website for the GenVisR library
Last synced: 12 Nov 2024
https://github.com/griffithlab/gnomad_annotation
Python package to add gnomAD allele frequencies to MGI annotated files
Last synced: 12 Nov 2024
https://github.com/griffithlab/genvisr-1
This is a read-only mirror of the Bioconductor SVN repository. Package Homepage: http://bioconductor.org/packages/devel/bioc/html/GenVisR.html Bug Reports: https://support.bioconductor.org/p/new/post/?tag_val=GenVisR.
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic-mapper
Tool to map variants to CIViC entries
Last synced: 12 Nov 2024
https://github.com/griffithlab/docker-civicpy
Docker containerization of the CIViCpy package - https://github.com/griffithlab/civicpy - civicpy.org
Last synced: 12 Nov 2024
https://github.com/griffithlab/epics
The project management repo of the Griffith Lab
Last synced: 12 Nov 2024
https://github.com/griffithlab/itcr2022
Jekyll site for ITCR 2022 conference
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic-api-client
Example tools using the CIVIC API
Last synced: 12 Nov 2024
https://github.com/griffithlab/cancer-hotspots
Predicting neoantigens from cancer hotspots
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic_pm
Open-sourced Precision Medicine Pathway using CIViC Annotations
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic-curation
For CIViC curation issues that do not directly involve code changes
Last synced: 12 Nov 2024
https://github.com/griffithlab/angular-ui-router-civic
Fork of ui-router with fix for uiSrefActive and nested routes applied
Last synced: 12 Nov 2024
https://github.com/griffithlab/civic_svi_course
A hands on course explaining how to complete somatic cancer variant interpretation using CIViC and current guidelines
Last synced: 12 Nov 2024
https://github.com/griffithlab/pvactools_intro_course
Getting started with pVACtools - pVACseq, pVACbind and pVACview
Last synced: 12 Nov 2024