Repositories list

• metorg_dashboard

  Public
  Decoding Metastasis Organotropism Dashboard

  JavaScript

  •

  Apache License 2.0

  •1•0•0•0•Updated Mar 14, 2026Mar 14, 2026

• fastfilter2

  Public
  Debugging of fastfilter repository

  Python

  •

  MIT License

  •0•0•0•0•Updated Mar 3, 2026Mar 3, 2026

• microarray_trends_geo

  Public
  R code to retrieve platform- and assay-type–specific dataset counts from the NCBI Gene Expression Omnibus (GEO) and generate plots

  R

  •0•0•0•0•Updated Nov 21, 2025Nov 21, 2025

• driver_neighbours

  Public
  code and data for the analysis of neighbours of cancer drivers

  Jupyter Notebook

  •

  MIT License

  •1•0•0•0•Updated Aug 22, 2025Aug 22, 2025

• driver_neighbours_dashboard

  Public
  HTML

  •

  Apache License 2.0

  •1•0•0•0•Updated Jul 16, 2025Jul 16, 2025

• miR-34c-RNAseq

  Public
  R

  •0•0•0•0•Updated Jan 13, 2025Jan 13, 2025

• sacsin

  Public
  proteomics quantitative analysis in sacsin depleted cell model

  R

  •0•0•0•0•Updated Nov 19, 2024Nov 19, 2024

• Thymus_project

  Public
  Code used in the manuscript Alcobia et al 2024

  Perl

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Oct 8, 2024Oct 8, 2024

• DanielEleuterio-MSc-Thesis

  Public
  R

  •0•0•0•0•Updated Jun 22, 2024Jun 22, 2024

• fire4cast

  Public
  Rule Based Model to predict risk of Fire blight disease transmission

  R

  •

  GNU General Public License v3.0

  •1•2•0•0•Updated Jan 8, 2024Jan 8, 2024

• Lim-et-al-2023

  Public
  R scripts used in the manuscript

  R

  •0•0•0•0•Updated Jul 28, 2023Jul 28, 2023

• web

  Public
  Public webpage of the RNA Systems Biology Lab at BioISI.

  TeX

  •11•1•0•0•Updated May 5, 2023May 5, 2023

• fastfilter

  Public
  Fast, multi-threaded FASTQ filtering script written in Python.

  rna-seqfastq

  rna-seqfastq

  Python

  •0•0•0•0•Updated May 5, 2023May 5, 2023

• RNA-Seq

  Public
  Scripts to support the lab RNA-Seq analysis workflows

  Python

  •0•1•0•0•Updated May 2, 2023May 2, 2023

• MLG_PhDThesis_SupData

  Public
  0•1•0•0•Updated Mar 27, 2023Mar 27, 2023

• GAP-MINE

  Public
  GAP-MIME algorithm for gene functional annotation prediciton

  Jupyter Notebook

  •1•0•0•0•Updated Feb 26, 2023Feb 26, 2023

• HSAT1A-transcript-analysis

  Public
  Analysis of HSAT1A based transcripts.

  R

  •0•1•0•0•Updated Aug 10, 2022Aug 10, 2022

• Prediction_Process_Disease_Associated_Genes

  Public
  Alexandre Coelho MSc Thesis Project

  Jupyter Notebook

  •0•0•0•0•Updated Apr 11, 2022Apr 11, 2022

• BioInt-U

  Public
  R

  •0•0•0•0•Updated Apr 10, 2022Apr 10, 2022

• MartaCorreia-PhD-thesis

  Public
  0•0•0•0•Updated Nov 23, 2021Nov 23, 2021

• S2Bapp

  Public
  Shiny app to compute Specific specific betweenness

  R

  •0•0•0•0•Updated Jan 30, 2021Jan 30, 2021

• SAO_metabolic_network

  Public
  R

  •0•0•0•0•Updated Jan 5, 2021Jan 5, 2021

• FH-Models-

  Public
  Top 10 models for the manuscript Correia et al.

  R

  •0•0•0•0•Updated Nov 23, 2020Nov 23, 2020

• NetSetStat

  Public
  Functions to deal with sets of nodes in networks

  Rebol

  •0•0•0•0•Updated Mar 8, 2019Mar 8, 2019

• examples_ggplot

  Public
  R

  •0•0•0•0•Updated Jan 7, 2019Jan 7, 2019

• FEA_simplification_comparison_scripts

  Public
  R

  •0•0•0•0•Updated Dec 10, 2018Dec 10, 2018

• S2B_directed

  Public
  R

  •0•0•0•0•Updated Nov 30, 2018Nov 30, 2018

• S2B

  Public
  Specific betweeness package

  R

  •2•0•0•0•Updated Jun 29, 2018Jun 29, 2018