Repositories list

• IsoAnnot

  Public
  Python

  •22 forks•99 stars•22 issues•00 pull requests•Updated May 2, 2026May 2, 2026

• SQANTI-single-cell

  Public
  Repository for development of new single cell SQANTI tool

  Python

  •

  MIT License

  •00 forks•44 stars•11 issue•00 pull requests•Updated Apr 30, 2026Apr 30, 2026

• SQANTI3

  Public
  Tool for the Quality Control of Long-Read Defined Transcriptomes

  Python

  •

  GNU General Public License v3.0

  •6565 forks•263263 stars•1515 issues•33 pull requests•Updated Apr 30, 2026Apr 30, 2026

• SQANTI-browser

  Public
  Tool for visualisation of SQANTI3 Long-Read Defined Transcriptomes in the UCSC Genome Browser

  HTML

  •

  GNU General Public License v3.0

  •00 forks•77 stars•00 issues•00 pull requests•Updated Apr 29, 2026Apr 29, 2026

• join_and_call_paper

  Public
  Code for the join & call publication

  Shell

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 29, 2026Apr 29, 2026

• SQANTI_evidence

  Public
  Repository to develop the snakemake pipeline to produce an long-reads guided structural annotation

  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 27, 2026Apr 27, 2026

• paintomics4

  Public
  JavaScript

  •

  GNU General Public License v3.0

  •00 forks•1010 stars•00 issues•00 pull requests•Updated Apr 27, 2026Apr 27, 2026

• STIMA

  Public
  Spatial Transcriptomics Image-based Methods for Alignment

  R

  •

  Other

  •00 forks•33 stars•00 issues•00 pull requests•Updated Apr 23, 2026Apr 23, 2026

• LongTREC_LRGASP_Platform

  Public
  Python

  •44 forks•00 stars•00 issues•22 pull requests•Updated Apr 18, 2026Apr 18, 2026

• tusco-paper

  Public
  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Apr 10, 2026Apr 10, 2026

• tappAS

  Public
  This repository contains the source code for the tappAS application. See README for details.

  Java

  •33 forks•2121 stars•1212 issues•00 pull requests•Updated Mar 9, 2026Mar 9, 2026

• courses-SQANTI_verse

  Public
  HTML

  •00 forks•55 stars•00 issues•00 pull requests•Updated Feb 17, 2026Feb 17, 2026

• MOSim

  Public
  Bulk and single-cell Multi-Omics ground truth Simulator in R

  R

  •22 forks•1212 stars•22 issues•00 pull requests•Updated Feb 10, 2026Feb 10, 2026

• rgmatch-rs

  Public
  Rust

  •

  MIT License

  •00 forks•11 star•00 issues•00 pull requests•Updated Feb 3, 2026Feb 3, 2026

• SQANTI_examples

  Public
  Repository with the examples and data needed to run sqanti3

  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 3, 2026Feb 3, 2026

• TensorPLS

  Public
  R

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 24, 2025Dec 24, 2025

• BiohackathonEurope2025P10

  Public
  Scripts developed for Biohackathon Europe 2025 Project 10

  Nextflow

  •11 fork•00 stars•00 issues•00 pull requests•Updated Nov 17, 2025Nov 17, 2025

• SQANTI-SIM

  Public
  A simulator of controlled transcript novelty for lrRNA-seq benchmark

  HTML

  •

  GNU General Public License v3.0

  •33 forks•99 stars•00 issues•11 pull request•Updated Sep 25, 2025Sep 25, 2025

• green-computing

  Public
  Repository for green computing resources to be shared and improved,

  00 forks•00 stars•00 issues•00 pull requests•Updated Jul 31, 2025Jul 31, 2025

• LIRLA

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated Jul 14, 2025Jul 14, 2025

• RColorConesa

  Public
  Conesa Palette for R

  R

  •

  Other

  •00 forks•77 stars•00 issues•00 pull requests•Updated Jun 27, 2025Jun 27, 2025

• Github-stats-saver

  Public
  Scripts to store downloads or otherwise relevant metrics of a program from different repositories

  Python

  •

  GNU General Public License v3.0

  •11 fork•22 stars•00 issues•00 pull requests•Updated Feb 17, 2025Feb 17, 2025

• SQANTI_reads_ComputationalEfficiency_plots

  Public
  Storage of scripts to reproduce the computational efficiency evaluation in Keil, Monzó, McIntyre, Conesa. 2025. SQANTI-reads

  Shell

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jan 31, 2025Jan 31, 2025

• MultiPower

  Public
  Statistical power studies for multi-omics experiments.

  R

  •1010 forks•3333 stars•44 issues•00 pull requests•Updated Jan 18, 2025Jan 18, 2025

• beanTFBSs

  Public
  Python

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 28, 2024Oct 28, 2024

• MORE

  Public
  Discover regulatory relationships for multi-omics data using regression models.

  R

  •11 fork•55 stars•00 issues•00 pull requests•Updated Mar 5, 2024Mar 5, 2024

• acorde

  Public
  Isoform co-usage networks from single-cell RNA-seq data

  HTML

  •

  GNU General Public License v3.0

  •66 forks•1717 stars•00 issues•00 pull requests•Updated Feb 21, 2024Feb 21, 2024

• SQANTI

  Public
  Python

  •

  MIT License

  •33 forks•1515 stars•00 issues•00 pull requests•Updated Apr 26, 2023Apr 26, 2023

• MAMBA

  Public
  MATLAB

  •

  GNU General Public License v2.0

  •00 forks•22 stars•00 issues•00 pull requests•Updated Oct 11, 2022Oct 11, 2022

• TCR_nextflow

  Public
  Nextflow

  •22 forks•1414 stars•11 issue•00 pull requests•Updated Feb 17, 2022Feb 17, 2022