Repositories list

• tcoffee-nf

  Public
  A DSL2 nextflow pipeline to run T-Coffee popular modes

  Nextflow

  •

  Apache License 2.0

  •00 forks in cbcrg/tcoffee-nf•00 stars in cbcrg/tcoffee-nf•00 issues in cbcrg/tcoffee-nf•00 pull requests in cbcrg/tcoffee-nf•Updated Jul 30, 2026Jul 30, 2026

• nf-benchmark

  Public
  Shell

  •

  MIT License

  •44 forks in cbcrg/nf-benchmark•11 star in cbcrg/nf-benchmark•1212 issues in cbcrg/nf-benchmark•00 pull requests in cbcrg/nf-benchmark•Updated Jul 30, 2026Jul 30, 2026

• lab_nxf_configs

  Public
  Repository to share nextflow configurations used by the lab

  Apache License 2.0

  •11 fork in cbcrg/lab_nxf_configs•00 stars in cbcrg/lab_nxf_configs•00 issues in cbcrg/lab_nxf_configs•00 pull requests in cbcrg/lab_nxf_configs•Updated Jul 30, 2026Jul 30, 2026

• tcoffee

  Public
  A collection of tools for Multiple Alignments of DNA, RNA, Protein Sequence

  C

  •4242 forks in cbcrg/tcoffee•118118 stars in cbcrg/tcoffee•2828 issues in cbcrg/tcoffee•33 pull requests in cbcrg/tcoffee•Updated Jul 21, 2026Jul 21, 2026

• DeepBenchBioData

  Public
  Repository for the code of the TFM.

  Python

  •11 fork in cbcrg/DeepBenchBioData•00 stars in cbcrg/DeepBenchBioData•00 issues in cbcrg/DeepBenchBioData•00 pull requests in cbcrg/DeepBenchBioData•Updated Jul 2, 2026Jul 2, 2026

• pergola-reproduce

  Public
  Wrapper of the three repositories reproducing Pergola paper analysis

  Dockerfile

  •

  GNU General Public License v3.0

  •11 fork in cbcrg/pergola-reproduce•00 stars in cbcrg/pergola-reproduce•00 issues in cbcrg/pergola-reproduce•00 pull requests in cbcrg/pergola-reproduce•Updated Mar 24, 2026Mar 24, 2026

• proteinfold_abotlp

  Public
  Protein 3D structure prediction pipeline

  Nextflow

  •

  MIT License

  •7575 forks in cbcrg/proteinfold_abotlp•00 stars in cbcrg/proteinfold_abotlp•00 issues in cbcrg/proteinfold_abotlp•00 pull requests in cbcrg/proteinfold_abotlp•Updated May 5, 2025May 5, 2025

• proteinfold_rosettafold_aa_test_deleteme

  Public
  Protein 3D structure prediction pipeline

  Nextflow

  •

  MIT License

  •7575 forks in cbcrg/proteinfold_rosettafold_aa_test_deleteme•00 stars in cbcrg/proteinfold_rosettafold_aa_test_deleteme•00 issues in cbcrg/proteinfold_rosettafold_aa_test_deleteme•00 pull requests in cbcrg/proteinfold_rosettafold_aa_test_deleteme•Updated Dec 6, 2024Dec 6, 2024

• alphafold3

  Public
  AlphaFold 3 inference pipeline.

  Python

  •

  Other

  •1.4k1.4k forks in cbcrg/alphafold3•00 stars in cbcrg/alphafold3•00 issues in cbcrg/alphafold3•00 pull requests in cbcrg/alphafold3•Updated Nov 25, 2024Nov 25, 2024

• deepmodeloptim

  Public
  Stochastic Testing and Input Manipulation for Unbiased Learning Systems

  Nextflow

  •

  MIT License

  •1414 forks in cbcrg/deepmodeloptim•11 star in cbcrg/deepmodeloptim•00 issues in cbcrg/deepmodeloptim•00 pull requests in cbcrg/deepmodeloptim•Updated Oct 23, 2024Oct 23, 2024

• stimulus

  Public
  Stochastic Testing and Input Manipulation for Unbiased Learning Systems

  Python

  •1414 forks in cbcrg/stimulus•00 stars in cbcrg/stimulus•00 issues in cbcrg/stimulus•00 pull requests in cbcrg/stimulus•Updated Oct 16, 2024Oct 16, 2024

• nf-class

  Public
  Wrapper around nf-core/tools to work with class-modules

  11 fork in cbcrg/nf-class•00 stars in cbcrg/nf-class•00 issues in cbcrg/nf-class•00 pull requests in cbcrg/nf-class•Updated Aug 30, 2024Aug 30, 2024

• multiplesequencealign

  Public
  A pipeline to run and systematically evaluate Multiple Sequence Alignment (MSA) methods.

  Nextflow

  •

  MIT License

  •1414 forks in cbcrg/multiplesequencealign•00 stars in cbcrg/multiplesequencealign•00 issues in cbcrg/multiplesequencealign•00 pull requests in cbcrg/multiplesequencealign•Updated Aug 28, 2024Aug 28, 2024

• class-modules

  Public
  A subset of curated nf-core/module and module templates

  Nextflow

  •

  MIT License

  •11 fork in cbcrg/class-modules•00 stars in cbcrg/class-modules•00 issues in cbcrg/class-modules•00 pull requests in cbcrg/class-modules•Updated Aug 22, 2024Aug 22, 2024

• alphafold

  Public
  CBCRG fork of the open source code for AlphaFold for nf-core/proteinfold

  Python

  •

  Apache License 2.0

  •3k3k forks in cbcrg/alphafold•00 stars in cbcrg/alphafold•00 issues in cbcrg/alphafold•00 pull requests in cbcrg/alphafold•Updated Mar 20, 2024Mar 20, 2024

• reportho

  Public
  nf-core pipeline for ortholog finding and analysis

  Nextflow

  •

  MIT License

  •77 forks in cbcrg/reportho•00 stars in cbcrg/reportho•00 issues in cbcrg/reportho•00 pull requests in cbcrg/reportho•Updated Mar 14, 2024Mar 14, 2024

• tcoffee.org

  Public
  Repository to host tcoffee.org website content

  CAP CDS

  •

  Apache License 2.0

  •11 fork in cbcrg/tcoffee.org•00 stars in cbcrg/tcoffee.org•00 issues in cbcrg/tcoffee.org•00 pull requests in cbcrg/tcoffee.org•Updated Feb 20, 2024Feb 20, 2024

• coordinate_projection

  Public
  Nextflow

  •11 fork in cbcrg/coordinate_projection•00 stars in cbcrg/coordinate_projection•00 issues in cbcrg/coordinate_projection•00 pull requests in cbcrg/coordinate_projection•Updated Jan 10, 2024Jan 10, 2024

• TANGO1

  Public
  codes used so far for TANGO1 projext

  Nextflow

  •11 fork in cbcrg/TANGO1•00 stars in cbcrg/TANGO1•00 issues in cbcrg/TANGO1•00 pull requests in cbcrg/TANGO1•Updated Aug 8, 2023Aug 8, 2023

• paralogs-nf

  Public
  Nextflow pipeline for applying the supermatrix and supertree phylogenetic reconstruction methods on paralogs datasets

  Jupyter Notebook

  •

  MIT License

  •33 forks in cbcrg/paralogs-nf•11 star in cbcrg/paralogs-nf•00 issues in cbcrg/paralogs-nf•00 pull requests in cbcrg/paralogs-nf•Updated Jun 3, 2023Jun 3, 2023

• open-data-registry

  Public
  A registry of publicly available datasets on AWS

  Python

  •

  Apache License 2.0

  •1.3k1.3k forks in cbcrg/open-data-registry•00 stars in cbcrg/open-data-registry•00 issues in cbcrg/open-data-registry•00 pull requests in cbcrg/open-data-registry•Updated Jun 2, 2023Jun 2, 2023

• msa-af2-nf

  Public
  Nextflow pipeline for the computation of structure-based MSAs with AlphaFold2 models

  Jupyter Notebook

  •

  MIT License

  •33 forks in cbcrg/msa-af2-nf•1313 stars in cbcrg/msa-af2-nf•00 issues in cbcrg/msa-af2-nf•00 pull requests in cbcrg/msa-af2-nf•Updated Dec 20, 2022Dec 20, 2022

• nf-phdcourse22

  Public
  Nextflow

  •

  MIT License

  •11 fork in cbcrg/nf-phdcourse22•00 stars in cbcrg/nf-phdcourse22•00 issues in cbcrg/nf-phdcourse22•00 pull requests in cbcrg/nf-phdcourse22•Updated Oct 25, 2022Oct 25, 2022

• phecomp

  Public
  R

  •00 forks in cbcrg/phecomp•11 star in cbcrg/phecomp•00 issues in cbcrg/phecomp•00 pull requests in cbcrg/phecomp•Updated May 11, 2022May 11, 2022

• ampa-nf

  Public
  Fast automated prediction of protein antimicrobial regions

  pipelinenextflowprotein-antimicrobial-regions

  pipelinenextflowprotein-antimicrobial-regions

  Perl

  •55 forks in cbcrg/ampa-nf•66 stars in cbcrg/ampa-nf•00 issues in cbcrg/ampa-nf•00 pull requests in cbcrg/ampa-nf•Updated Mar 15, 2022Mar 15, 2022

• nf-phdcourse21

  Public
  Nextflow training material for CRG PhD course 2021

  Nextflow

  •

  MIT License

  •11 fork in cbcrg/nf-phdcourse21•11 star in cbcrg/nf-phdcourse21•00 issues in cbcrg/nf-phdcourse21•00 pull requests in cbcrg/nf-phdcourse21•Updated Oct 19, 2021Oct 19, 2021

• rnaseq-nf

  Public
  A proof of concept of RNAseq pipeline

  Nextflow

  •

  Mozilla Public License 2.0

  •120120 forks in cbcrg/rnaseq-nf•00 stars in cbcrg/rnaseq-nf•00 issues in cbcrg/rnaseq-nf•00 pull requests in cbcrg/rnaseq-nf•Updated Oct 18, 2021Oct 18, 2021

• nf-phdcourse20

  Public
  Nextflow training material for CRG PhD course 2020

  Nextflow

  •

  MIT License

  •11 fork in cbcrg/nf-phdcourse20•44 stars in cbcrg/nf-phdcourse20•00 issues in cbcrg/nf-phdcourse20•00 pull requests in cbcrg/nf-phdcourse20•Updated Nov 11, 2020Nov 11, 2020

• dpa-analysis

  Public
  Nextflow Pipeline for the analysis of Double Progressive Alignment (DPA)

  Jupyter Notebook

  •44 forks in cbcrg/dpa-analysis•00 stars in cbcrg/dpa-analysis•00 issues in cbcrg/dpa-analysis•00 pull requests in cbcrg/dpa-analysis•Updated Jan 14, 2020Jan 14, 2020

• pergola

  Public
  A tool for the visualization and analysis of longitudinal behavioral data

  Python

  •

  GNU General Public License v3.0

  •33 forks in cbcrg/pergola•55 stars in cbcrg/pergola•66 issues in cbcrg/pergola•00 pull requests in cbcrg/pergola•Updated Dec 24, 2019Dec 24, 2019