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    • BCH709

      Public
      Introduction to Bioinformatics
      Python
      Other
      4200Updated Apr 28, 2026Apr 28, 2026
    • PGRP_Snakemake
      Python
      0000Updated Apr 28, 2026Apr 28, 2026
    • Sylvan

      Public
      Comprehensive genome annotation pipeline for plant combining EVM/PASA, GETA, AUGUSTUS and Helixer with semi-supervised filtering for high-quality gene models.
      Python
      MIT License
      0200Updated Apr 2, 2026Apr 2, 2026
    • Python
      120011Updated Mar 10, 2026Mar 10, 2026
    • chimera_scan from genome annotation
      Python
      0000Updated Feb 13, 2026Feb 13, 2026
    • Helixer

      Public
      Using Deep Learning to predict gene annotations
      Python
      GNU General Public License v3.0
      35000Updated Apr 8, 2025Apr 8, 2025
    • Rust
      GNU General Public License v3.0
      5000Updated Nov 26, 2024Nov 26, 2024
    • Hyper-editing
      Perl
      MIT License
      4000Updated Sep 18, 2024Sep 18, 2024
    • hisat2

      Public
      Graph-based alignment (Hierarchical Graph FM index)
      C++
      GNU General Public License v3.0
      130000Updated Aug 7, 2024Aug 7, 2024
    • PsiCLASS

      Public
      Simultaneous multi-sample transcript assembler for RNA-seq data
      C
      6000Updated May 2, 2024May 2, 2024
    • HMMerMe

      Public
      Python
      1000Updated Apr 11, 2024Apr 11, 2024
    • geta

      Public
      Perl
      GNU General Public License v3.0
      28000Updated Feb 20, 2024Feb 20, 2024
    • Python
      1000Updated Nov 6, 2023Nov 6, 2023
    • RNASeq_CSSI
      Python
      4000Updated Feb 25, 2023Feb 25, 2023
    • Pipeline for Straightforward Usage of ALLHic
      Python
      0500Updated Feb 24, 2023Feb 24, 2023
    • R
      1000Updated Dec 13, 2022Dec 13, 2022
    • SCSS
      0100Updated Sep 13, 2022Sep 13, 2022
    • lab

      Public
      labwebsite
      0000Updated Sep 13, 2022Sep 13, 2022
    • A pipeline to identify causal mutations in EMS mutant
      HTML
      4000Updated Jul 22, 2022Jul 22, 2022
    • jcvi

      Public
      Python library to facilitate genome assembly, annotation, and comparative genomics
      Python
      BSD 2-Clause "Simplified" License
      199000Updated Jun 10, 2022Jun 10, 2022
    • The code used in the manuscript titled "Gene duplication and evolution in recurring polyploidization-diploidization cycles in plants".
      Perl
      23000Updated Jun 9, 2022Jun 9, 2022
    • Perl
      3000Updated Feb 18, 2022Feb 18, 2022
    • CLASS_2021

      Public template
      Statistical and computational analysis of the human genome
      R
      7000Updated Mar 7, 2021Mar 7, 2021
    • List of software/websites/databases/other stuff for genome engineering
      MIT License
      122100Updated Dec 16, 2020Dec 16, 2020
    • allhic

      Public
      Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
      Jupyter Notebook
      BSD 3-Clause "New" or "Revised" License
      13000Updated Dec 8, 2020Dec 8, 2020
    • Flexible Gene Differential Expression Analysis
      R
      0000Updated Nov 20, 2020Nov 20, 2020
    • Various scripts for running different bioinformatics workflow pipelines
      Shell
      0000Updated Oct 27, 2020Oct 27, 2020
    • Successful Job Applications and Grants
      Other
      150000Updated Oct 22, 2020Oct 22, 2020
    • 14000Updated Oct 9, 2020Oct 9, 2020
    • biotools

      Public
      A list of useful bioinformatics resources
      168000Updated Jun 18, 2020Jun 18, 2020
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