Repositories list

• not2code

  Public
  lnc annotation pipeline

  C

  •

  MIT License

  •0•0•0•0•Updated Jul 31, 2025Jul 31, 2025

• dalmolingroup.github.io

  Public
  Dalmolin Group's website

  HTML

  •

  BSD 3-Clause "New" or "Revised" License

  •4•0•1•0•Updated Jul 22, 2025Jul 22, 2025

• genebridge-course

  Public
  GeneBridge: Inferindo o Enraizamento Evolutivo de Genes Ortólogos

  1•0•0•0•Updated Jul 9, 2025Jul 9, 2025

• mare-methods

  Public
  MaRe (Metagenômica de Mangue e Restinga)

  documentationresearchmetagenomics+ 4microbiomeecologymanguerestinga

  0•0•0•0•Updated Jun 13, 2025Jun 13, 2025

• euryale

  Public
  A pipeline for taxonomic classification and functional annotation of metagenomic reads. Based on MEDUSA

  snakemakepipelinenextflow+ 5diamondmetagenomicsfunctional-annotationkaijutaxonomic-classification

  Nextflow

  •

  MIT License

  •0•14•2•0•Updated Apr 16, 2025Apr 16, 2025

• cochineal_16s

  Public
  Analysis of 16S data on the cochineal insect

  metagenomics16scochineal+ 1metataxonomics

  TeX

  •0•0•0•0•Updated Apr 2, 2025Apr 2, 2025

• systemsbiology-course

  Public
  Material para o curso Biologia de Sistemas, organizado pelo Prof. Rodrigo Dalmolin, do Centro Multiusuário de Bioinformática da UFRN.

  0•0•0•0•Updated Mar 19, 2025Mar 19, 2025

• introductionR-course

  Public
  Material para o curso Introdução ao R, organizado pelo Prof. Rodrigo Dalmolin, do Centro Multiusuário de Bioinformática da UFRN.

  R

  •0•0•0•0•Updated Mar 19, 2025Mar 19, 2025

• metagenome-course

  Public
  Material para o curso Análise de dados de Metagenômica, organizado pelo Prof. Rodrigo Dalmolin, do Centro Multiusuário de Bioinformática da UFRN

  coursemetagenomicscoursework+ 3microbiomemicrobiome-analysisshotgun-metagenomics

  0•1•0•0•Updated Mar 15, 2025Mar 15, 2025

• KEGG-Pathway-Viewer

  Public
  Tool to visualize KEGG networks

  HTML

  •

  MIT License

  •1•0•0•0•Updated Feb 11, 2025Feb 11, 2025

• r-course-dalmolin

  Public
  R programming course

  HTML

  •0•1•0•0•Updated Feb 10, 2025Feb 10, 2025

• curso-shell

  Public
  Curso de Introdução à Linha de Comando, ministrado como parte da Semana de Portas Abertas do PPg-Bioinfo

  HTML

  •0•0•0•0•Updated Feb 10, 2025Feb 10, 2025

• intro_deep-learning

  Public
  Jupyter Notebook

  •1•4•0•0•Updated Dec 5, 2024Dec 5, 2024

• easylayout

  Public
  interactive force-directed graph layouts within RStudio

  ggplot2bioinformaticsr+ 17shinysveltedata-visualizationnetworkxbioconductorgraph-theorycytoscape+ 10

  JavaScript

  •

  Other

  •0•4•2•0•Updated Dec 3, 2024Dec 3, 2024

• MB_MRA

  Public
  R

  •1•1•0•0•Updated Oct 1, 2024Oct 1, 2024

• bulkrna

  Public
  Dalmolin Group's workflow for pre-processing, alignment and quantification of bulk RNA-seq data

  bioinformaticspipelinenextflow+ 2expressionbulk-rna-seq

  Groovy

  •

  MIT License

  •2•8•0•0•Updated Sep 30, 2024Sep 30, 2024

• MEDUSA

  Public
  Metagenomic pipeline managed by snakemake

  Python

  •

  GNU General Public License v3.0

  •3•18•0•0•Updated Sep 18, 2024Sep 18, 2024

• mdd-paper

  Public
  Sex-specific transcriptional alteration profile of MDD

  R

  •1•1•0•0•Updated Aug 16, 2024Aug 16, 2024

• .github

  Public
  MIT License

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

• trastuzumab_dge

  Public
  What Powers Trastuzumab's Cardiotoxicity? Decoding Mitochondrial-Related Gene Expression Through Integrative Review and Meta-Analysis in Cardiomyocytes

  HTML

  •0•1•0•0•Updated May 27, 2024May 27, 2024

• intro-single-cell

  Public
  Introduction to single-cell RNA-seq analysis

  R

  •

  MIT License

  •2•2•0•0•Updated May 15, 2024May 15, 2024

• MicroView

  Public
  A reporting tool for aggregating results from taxonomic classification analyses

  reportingmetagenomicstaxonomic-classification+ 1taxonomic

  Python

  •

  BSD 3-Clause "New" or "Revised" License

  •0•0•0•0•Updated May 2, 2024May 2, 2024

• Network-lncRNA-mCRPC

  Public
  Scripts used in the analyzes of the paper titled "Revealing metastatic castration-resistant prostate cancer (mCRPC) master regulator through lncRNA-centered regulatory network".

  R

  •0•2•0•0•Updated Jul 25, 2023Jul 25, 2023

• meta_taraoceans

  Public
  Bioinformatics research project on metagenomic in samples from TaraOceans expediction

  R

  •1•1•0•0•Updated Jun 7, 2023Jun 7, 2023

• KeggPathwayAPs

  Public
  Systems Biology Approaches in the Investigation of Articulation Points in Kegg Metabolic Pathways

  R

  •

  GNU General Public License v3.0

  •0•2•0•0•Updated Jun 6, 2022Jun 6, 2022

• MEDUSA_supplements

  Public
  A hub for information related to the manuscript "MEDUSA: A Pipeline for Sensitive Taxonomic Classification and Flexible Functional Annotation of Metagenomic Shotgun Sequences"

  0•0•0•0•Updated Jan 30, 2022Jan 30, 2022

• ComparisonMEGANxMEDUSA

  Public
  R

  •2•0•0•0•Updated Jan 29, 2022Jan 29, 2022

• transcriptogramer

  Public
  R package for transcriptional analysis based on transcriptograms

  R

  •3•1•0•0•Updated Sep 14, 2021Sep 14, 2021

• annotate

  Public
  Python script to annotate each query using the best alignment for which a mapping is known

  pythonleveldbdiamond+ 1alignment

  Python

  •

  GNU General Public License v3.0

  •1•1•0•0•Updated Aug 18, 2021Aug 18, 2021

• essential_genes_paper

  Public
  Repository for the ancestry analysis of essential genes in eukaryotes

  essential-genessystems-evolution

  R

  •1•0•0•0•Updated Jun 2, 2021Jun 2, 2021