Pinned Repositories
BGA24
training material for the BGA2024 course Samples to Genomes
BRAKER
BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET and AUGUSTUS in novel eukaryotic genomes
btk_sequences_to_remove
genblastg_patch
patched version of genblastg v.139 of the Jack Chen lab
homebrew
The missing package manager for OS X.
modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
PretextMap
Paired REad TEXTure Mapper. Converts SAM formatted read pairs into genome contact maps.
PretextView
OpenGL Powered Pretext Contact Map Viewer
Rapid-curation-2.0
TPF-less rapid curation of genomes
S2G-manual-curation
Samples 2 Genome (ASG): Introduction to Manual Curation of ASG samples - HiC and JBrowse
epaule's Repositories
epaule/BGA24
training material for the BGA2024 course Samples to Genomes
epaule/BRAKER
BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET and AUGUSTUS in novel eukaryotic genomes
epaule/btk_sequences_to_remove
epaule/modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
epaule/PretextMap
Paired REad TEXTure Mapper. Converts SAM formatted read pairs into genome contact maps.
epaule/PretextView
OpenGL Powered Pretext Contact Map Viewer
epaule/Rapid-curation-2.0
TPF-less rapid curation of genomes
epaule/S2G-manual-curation
Samples 2 Genome (ASG): Introduction to Manual Curation of ASG samples - HiC and JBrowse
epaule/test-datasets
Test data to be used for automated testing with the nf-core pipelines
epaule/agr_schemas
A repository of JSON schemas for incorporating data into the Alliance of Genome Resources.
epaule/Apollo
Genome annotation editor with a Java Server backend and a Javascript client that runs in a web browser as a JBrowse plugin.
epaule/biofast
Benchmarking programming languages/implementations for common tasks in Bioinformatics (did a fork to add some crystal implementations))
epaule/bioperl-live
Core BioPerl 1.x code
epaule/blobtoolkit-docker
epaule/blobtools2
Redesigning BlobTools to support interactive data exploration
epaule/bmalayi-id-app
An very basic AppEngine app to sync curation between the centers. [as in zero styling of the pages].
epaule/curation_stats
quick hack for curation stats
epaule/docker-apollo
:whale: Apollo 2.X Docker Image
epaule/EARs
The ERGA Assembly Reports repository
epaule/eg-web-common
modules/files required to set up any of the EG genome browsers
epaule/elixir-pragdave
for pragdaves elixir exercises
epaule/ensembl
The Ensembl Core Perl API and SQL schema
epaule/ensj-healthcheck
Ensembl's Automated QC Framework
epaule/MakeHub
Fully automated generation of UCSC assembly hubs
epaule/Nextflow_sandbox
for the ERGA tutorial
epaule/randomStuff
epaule/sdust
Symmetric DUST for finding low-complexity regions in DNA sequences
epaule/test
test
epaule/TETools
Dfam Transposable Element Tools Docker container.
epaule/VARUS
RNA-Seq sampling