guigolab repositories

58 repositories

biogenome-portal
Public template
Biogenome data portal
taxonomy tree-structure biodiversity
taxonomy tree-structure biodiversity
Vue
•
MIT License
•2•6•0•0•Updated Sep 7, 2026Sep 7, 2026
CLS3_GENCODE
Public
Charting thousands of novel gene loci in the human and mouse genomes through targeted full-length long-read RNA sequencing
R
•3•5•0•0•Updated Sep 7, 2026Sep 7, 2026
annotrieve
Public
Annotrieve: a central hub for eukaryotic genome annotations
genomics gff3 genome-annotation
genomics gff3 genome-annotation biodiversity genome-browser
TypeScript
•
MIT License
•1•8•0•0•Updated Sep 7, 2026Sep 7, 2026
ebp-assemblies-tracker
Public
Tracks the assemblies under the Earth Biogenome Project (PRJNA533106) in NCBI Datasets
Shell
•
MIT License
•0•1•0•0•Updated Sep 7, 2026Sep 7, 2026
BUSCO-tracker
Public
Automated BUSCO values for eukaryotic genome annotation
Python
•
MIT License
•1•0•0•0•Updated Sep 6, 2026Sep 6, 2026
alias-mapper
Public
CLI to map alias names of biological molecules across naming conventions.
Python
•
MIT License
•1•0•0•0•Updated Sep 6, 2026Sep 6, 2026
bioproject-genome-tracker
Public
Retrieve all the INSDC public assemblies under a BioProject umbrella
MIT License
•3•0•0•0•Updated Sep 6, 2026Sep 6, 2026
genome-annotation-tracker
Public
Tracks Eukaryotic genome annotations (gff) from NCBI and Ensembl
genome gff3 annotations
genome gff3 annotations genes genomes gff3-files
Python
•0•0•0•0•Updated Sep 4, 2026Sep 4, 2026
geneid
Public
Predict genic elements as splice sites, exons or genes, along eukaryotic DNA sequences
C
•6•18•3•0•Updated Jul 18, 2026Jul 18, 2026
annotrieve-registry
Public
Python
•2•1•0•0•Updated Jul 14, 2026Jul 14, 2026
gffy
Public
gffy — A fast GFF statistics extractor. Well, because the world needed another one.
statistics genomics gff3
statistics genomics gff3 genome-annotation gtf gtf-to-gff annotrieve gff-stats
Python
•
MIT License
•1•3•0•0•Updated May 22, 2026May 22, 2026
EPIraction
Public
Perl
•
GNU General Public License v3.0
•1•1•0•0•Updated May 4, 2026May 4, 2026
ansible-role-minknow-guppy-gpu
Public
Ansible role to install and configure ONT MinKNOW with GPU support when basecalling using guppy
0•0•0•0•Updated Jan 26, 2026Jan 26, 2026
tmerge
Public
Merge transcriptome read-to-genome alignments into non-redundant transcript models
bioinformatics genomics genome
bioinformatics genomics genome sequencing merge long-read transcriptome transcriptomics
MIT License
•3•20•1•0•Updated Jan 21, 2026Jan 21, 2026
grape-nf
Public
An automated RNA-seq pipeline using Nextflow
rna-seq pipeline nextflow
rna-seq pipeline nextflow ngs crg guigo
Nextflow
•
GNU General Public License v3.0
•10•37•31•1•Updated Dec 17, 2025Dec 17, 2025
jbrowse-plugin-annotrieve
Public
Plugin to load annotation tracks from the Annotrieve API
TypeScript
•
Apache License 2.0
•0•0•0•0•Updated Oct 27, 2025Oct 27, 2025
LyRic
Public
Long RNA-seq analysis workflow
bioinformatics rnaseq transcriptomics
bioinformatics rnaseq transcriptomics gencode cls snakemake-workflow pacbio-iso-seq
Python
•
GNU General Public License v3.0
•6•23•7•0•Updated Oct 13, 2025Oct 13, 2025
scientry
Public template
Vue
•0•0•0•0•Updated Jul 28, 2025Jul 28, 2025
biodiversity-genomics-scripts
Public
A bunch of scripts to retrieve biodiversity genomics data (NCBI and Ensembl)
Python
•0•0•0•0•Updated Mar 25, 2025Mar 25, 2025
jbrowse-plugin-refget-api
Public
A JBrowse 2 plugin to access servers implementing the refget API of GA4GH
TypeScript
•
Apache License 2.0
•0•3•0•0•Updated Jan 16, 2025Jan 16, 2025
gff2ps
Public
A program for visualizing annotations of genomic sequences
Vue
•0•2•0•0•Updated Oct 25, 2024Oct 25, 2024
rnaseq-course
Public
Data for the RNAseq course at CRG
1•0•0•1•Updated Oct 24, 2024Oct 24, 2024
rnaget-beacon-demo
Public
Demo of the RNAget extension for BeaconV2
Python
•
MIT License
•0•0•0•0•Updated Oct 2, 2024Oct 2, 2024
beacon-v2
Public
Unified repository for the GA4GH Beacon v2 API standard
Creative Commons Zero v1.0 Universal
•21•0•0•1•Updated Jul 17, 2024Jul 17, 2024
ggsashimi
Public
Command-line tool for the visualization of splicing events across multiple samples
Python
•
MIT License
•45•143•11•0•Updated Jun 28, 2024Jun 28, 2024
file-stream-server
Public
A little flask API to stream download files given a folder path
0•0•0•0•Updated May 14, 2024May 14, 2024
selenoprofiles-nf
Public
selenoprofiles4 nextflow pipeline
Nextflow
•
GNU General Public License v3.0
•0•0•0•0•Updated Jan 7, 2024Jan 7, 2024
geneidx
Public
Nextflow pipeline for genome annotation of protein-coding genes
genome-annotation gene-prediction nextflow-pipeline
genome-annotation gene-prediction nextflow-pipeline
Nextflow
•
GNU General Public License v3.0
•2•16•2•0•Updated Dec 21, 2023Dec 21, 2023
geneid-parameter-files
Public
Repo with all the geneid parameter files
Python
•0•0•0•0•Updated Nov 28, 2023Nov 28, 2023
geneid-param-resolver
Public
Given a taxID returns the closest parameter file contained in the repository: https://github.com/guigolab/geneid-parameter-files
0•0•0•0•Updated Nov 9, 2023Nov 9, 2023

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Guigo Lab

All

58 repositories

biogenome-portal

CLS3_GENCODE

annotrieve

ebp-assemblies-tracker

BUSCO-tracker

alias-mapper

bioproject-genome-tracker

genome-annotation-tracker

geneid

annotrieve-registry

gffy

EPIraction

ansible-role-minknow-guppy-gpu

tmerge

grape-nf

jbrowse-plugin-annotrieve

LyRic

scientry

biodiversity-genomics-scripts

jbrowse-plugin-refget-api

gff2ps

rnaseq-course

rnaget-beacon-demo

beacon-v2

ggsashimi

file-stream-server

selenoprofiles-nf

geneidx

geneid-parameter-files

geneid-param-resolver

Repositories list

58 repositories