Repositories list

• course-web

  Public
  Template for the workshop website

  Pug

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Oct 22, 2025Oct 22, 2025

• Tutorial_02_exploratory_data_analysis

  Public
  R

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  Other

  •0•0•0•0•Updated Oct 21, 2025Oct 21, 2025

• UPSCb-common

  Public
  Common scripts

  HTML

  •

  GNU General Public License v3.0

  •13•15•0•0•Updated Oct 14, 2025Oct 14, 2025

• Tutorial_03_differential_gene_expression

  Public
  Third tutorial in a series on RNA-Seq data analysis

  R

  •

  Other

  •0•0•0•0•Updated Oct 1, 2025Oct 1, 2025

• Tutorial_04_gene_set_enrichment_analysis

  Public
  R

  •

  Other

  •0•0•0•0•Updated Oct 1, 2025Oct 1, 2025

• Documentation

  Public
  This is a repository to keep files necessary for hosting documentation

  0•0•0•0•Updated Sep 22, 2025Sep 22, 2025

• project-template

  Public template
  Shell

  •

  GNU General Public License v3.0

  •2•2•0•0•Updated Aug 6, 2025Aug 6, 2025

• isoseq

  Public
  Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed annotation.

  Nextflow

  •

  MIT License

  •21•0•0•0•Updated Jun 30, 2025Jun 30, 2025

• Tutorial_01_data_science_intro

  Public
  R

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  Other

  •0•0•0•0•Updated Apr 29, 2025Apr 29, 2025

• bioinformatics-meetup-web

  Public
  Live-coded bioinformatics meetup website

  TypeScript

  •0•0•0•0•Updated Apr 16, 2025Apr 16, 2025

• arabidopsis-floral-induction

  Public
  The objective of this project is to identify genes that are differentially expressed during floral induction in Arabidopsis. We have collected samples using a Dexamethasone inducible system that triggers floral induction upon treatment. Provided samples are total RNA from apex and leaf tissues from Arabidopsis. Samples were collected at Day 1 (D…

  HTML

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  GNU General Public License v3.0

  •0•0•0•0•Updated Apr 8, 2025Apr 8, 2025

• .github

  Public
  0•0•0•0•Updated Apr 8, 2025Apr 8, 2025

• RnaSeqTutorial

  Public
  An R tutorial package that describes the pre-processing of RNA-Seq data - from the raw (FASTQ) data to the alignment (mapping) to a reference genome - and its subsequent differential expression analysis at the gene and transcript level.

  R

  •1•2•0•0•Updated Mar 20, 2025Mar 20, 2025

• NorWood

  Public
  NorWood scripts including; preprocessing scripts (R markdown, Python) and Web scripts (HTML, PHP, Python, Javascript)

  HTML

  •0•0•0•0•Updated Mar 20, 2025Mar 20, 2025

• aba

  Public
  Photoperiodic control of seasonal growth is mediated by ABA acting on cell-cell communication

  HTML

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Mar 20, 2025Mar 20, 2025

• Dockerfile

  Public
  Host the dockerfile from dockerhub/delhomme

  Python

  •2•2•0•0•Updated Mar 20, 2025Mar 20, 2025

• Tutorial_06_differential_transcript_usage

  Public
  R

  •

  Other

  •0•0•0•0•Updated Mar 20, 2025Mar 20, 2025

• Tutorial_05_ensemble_gene_set_enrichment_analysis

  Public
  R

  •

  Other

  •0•0•0•0•Updated Mar 20, 2025Mar 20, 2025

• SeidRFile

  Public
  An R package to manipulate sei∂r files

  C++

  •

  Other

  •0•0•0•0•Updated Mar 20, 2025Mar 20, 2025

• Tutorial_template

  Public template
  R

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  Other

  •0•0•0•0•Updated Dec 4, 2024Dec 4, 2024

• UPSCb

  Public
  HTML

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  MIT License

  •3•5•0•0•Updated Oct 28, 2024Oct 28, 2024

• spruce-seasonal-needles

  Public
  Overwintering the boreal winter: From thylakoid ultra structure to photosynthetic adaptations of conifers

  HTML

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Jun 14, 2021Jun 14, 2021

• MARVEL

  Public
  The MARVEL assembler

  C

  •

  Other

  •23•0•0•0•Updated May 15, 2018May 15, 2018