Alternatives and similar repositories for TRANSCRIPTOME-ASSEMBLY-PIPELINE

Users that are interested in TRANSCRIPTOME-ASSEMBLY-PIPELINE are comparing it to the libraries listed below

• wen-chen / naughty_monkey

  View on GitHub
  Some useful gadgets
  ☆11Mar 14, 2022Updated 3 years ago
• jleluyer / rna-seq_denovo_workflow

  View on GitHub
  Pipeline for transcriptome de novo assembly
  ☆12Mar 1, 2018Updated 7 years ago
• willsheffler / worms

  View on GitHub
  Protein Origami via Genetic Fusions
  ☆17Sep 19, 2022Updated 3 years ago
• LQHHHHH / paml-yn00-run-pipeline

  View on GitHub
  A personal pipeline to calculate Ka,Ks and Ka/Ks using PAML-yn00 with YN method
  ☆10Feb 26, 2025Updated 11 months ago
• LiLabAtVT / CompareTranscriptome

  View on GitHub
  repository of scripts for comparative transcriptome analysis
  ☆19Apr 10, 2019Updated 6 years ago
• Zhanmengtao / bin

  View on GitHub
  scripts
  ☆20Nov 2, 2018Updated 7 years ago
• hangelwen / miR-PREFeR

  View on GitHub
  microRNA PREdiction From small RNA-seq data
  ☆31Dec 28, 2017Updated 8 years ago
• marqueda / SFS-scripts

  View on GitHub
  A collection of tools useful for preparing or manipulating site-frequency spectrum (SFS) files
  ☆21Mar 20, 2023Updated 2 years ago
• qiime2 / q2-dada2

  View on GitHub
  QIIME 2 plugin wrapping DADA2
  ☆22Jan 27, 2026Updated 3 weeks ago
• acorg / beast2-xml

  View on GitHub
  Python code to generate BEAST2 XML files
  ☆22Jan 19, 2026Updated 3 weeks ago
• lorrainea / CNEFinder

  View on GitHub
  CNEFinder: Finding Conserved Non-coding Elements in Genomes
  ☆25Jul 21, 2021Updated 4 years ago
• indexofire / pathongs

  View on GitHub
  Pathogen NGS Documentary
  ☆154Jan 26, 2026Updated 3 weeks ago
• mr-dxdy / calculator-kivy

  View on GitHub
  Калькулятор на python / kivy
  ☆12Oct 1, 2021Updated 4 years ago
• COMBINE-lab / RapClust

  View on GitHub
  Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes
  ☆31Jun 16, 2024Updated last year
• StuntsPT / pyRona

  View on GitHub
  A python implementation of "Risk of non Adaptedness" method (with a bit of R too!)
  ☆10Aug 2, 2021Updated 4 years ago
• asafpr / RILseq

  View on GitHub
  RILseq computational protocol
  ☆10Apr 3, 2022Updated 3 years ago
• kelleyharris / Inferring-demography-from-IBS

  View on GitHub
  A python framework for inferring demography from tracts of identity by state as reported in PLoS Genetics by Harris and Nielsen (2013)
  ☆15Aug 1, 2013Updated 12 years ago
• Sung-Huan / ANNOgesic

  View on GitHub
  ANNOgesic - A Swiss army knife for the RNA-Seq based annotation of bacterial/archaeal genomes
  ☆33Feb 16, 2024Updated 2 years ago
• irusri / Extract-intron-from-gff3

  View on GitHub
  This script will extract the intron feature gff3 and sequence from gene_exon gff3 and fasta file.
  ☆33Oct 14, 2018Updated 7 years ago
• Oshlack / Corset

  View on GitHub
  Software for clustering de novo assembled transcripts and counting overlapping reads
  ☆76Feb 11, 2022Updated 4 years ago
• limey-bean / Anacapa

  View on GitHub
  Written by Emily Curd (eecurd@g.ucla.edu), Jesse Gomer (jessegomer@gmail.com), Gaurav Kandlikar (gkandlikar@ucla.edu), Zack Gold (zjgold@…
  ☆45Jan 18, 2024Updated 2 years ago
• sequana / sequana

  View on GitHub
  Sequana: a set of Snakemake NGS pipelines
  ☆152Jan 22, 2026Updated 3 weeks ago
• sjteresi / TE_Density

  View on GitHub
  Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…
  ☆37Sep 30, 2024Updated last year
• CarmenSheppard / PneumoKITy

  View on GitHub
  PneumoKITy - Fast sensitive Pneumococcal Capsular Serotype screening from WGS data
  ☆10Sep 1, 2025Updated 5 months ago
• veg / alignment.js

  View on GitHub
  Javascript alignment viewer
  ☆11Nov 29, 2023Updated 2 years ago
• TaliaferroLab / LABRAT

  View on GitHub
  Lightweight Alignment Based Resolution of Alternative Three Prime Ends
  ☆10Jan 26, 2024Updated 2 years ago
• RybergGroup / phylommand

  View on GitHub
  Phylommand is a software package to create, manipulate, and/or analyze phylogenetic trees or pairwise alignments.
  ☆10Sep 5, 2024Updated last year
• proteinphysiologylab / FrustraEvo

  View on GitHub
  ☆14Apr 3, 2025Updated 10 months ago
• aitoollist / awesome-ai-tool-list

  View on GitHub
  An awesome directory of AI tools. The list here is the data source for the searchable web directory @ https://www.aitoollist.org . Discov…
  ☆18May 7, 2025Updated 9 months ago
• patidarr / annotation-pipeline

  View on GitHub
  ☆10May 17, 2017Updated 8 years ago
• jdalapicolla / LanGen_pipeline_version2

  View on GitHub
  Scripts in R for Landscape Genomics Analyses v.2
  ☆10Feb 17, 2023Updated 3 years ago
• ToolkitlyAI / awesome-ai-tools

  View on GitHub
  A curated collection of 650+ AI tools for productivity, creativity, and innovation. Contribute via pull requests to join the community! E…
  ☆15Jun 25, 2025Updated 7 months ago
• FlyPythons / KEGGTools

  View on GitHub
  A collection of tools to download and process KEGG database
  ☆41Jun 4, 2018Updated 7 years ago
• borenstein-lab / burrito

  View on GitHub
  A visualization tool for exploratory data analysis of metagenomic data
  ☆39Mar 22, 2022Updated 3 years ago
• VoigtLab / predict-lab-origin

  View on GitHub
  Software for article "Deep learning to predict the lab-of-origin of engineered DNA"
  ☆13Aug 7, 2018Updated 7 years ago
• carpentries-incubator / python-text-analysis

  View on GitHub
  Text Analysis with Python
  ☆12Feb 10, 2026Updated last week
• amkram / shusher

  View on GitHub
  Private, browser-based placement of genome sequences on phylogenetic trees using UShER.
  ☆11Nov 22, 2024Updated last year
• hliang / cnv-seq

  View on GitHub
  cnv-seq with custom bugfix
  ☆10Mar 23, 2013Updated 12 years ago
• qiyunzhu / BeforePhylo

  View on GitHub
  Perl script for manipulating multiple sequence alignments for phylogenetic reconstruction
  ☆11Sep 29, 2014Updated 11 years ago