Repositories list

• ENA_validation

  Public
  Script to pre-screen gff3 for validation

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Apr 15, 2025Apr 15, 2025

• vizgen_data_transfer

  Public
  Vizgen Data Transfer

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Apr 11, 2025Apr 11, 2025

• FusariumPanAnno

  Public
  GNU General Public License v3.0

  •0•1•0•0•Updated Mar 12, 2025Mar 12, 2025

• reat

  Public
  Robust Eukaryotic Annotation Toolkit

  singularityworkflowscromwell+ 1bioinformatics

  Python

  •

  MIT License

  •3•18•6•1•Updated Feb 28, 2025Feb 28, 2025

• eirepeat

  Public
  eirepeat - EI Repeat Identification pipeline

  Python

  •

  GNU General Public License v3.0

  •2•7•1•0•Updated Feb 28, 2025Feb 28, 2025

• eifunannot

  Public
  eifunannot - EI AHRD functional annotation pipeline

  Python

  •

  GNU General Public License v3.0

  •0•1•1•0•Updated Feb 28, 2025Feb 28, 2025

• mikado

  Public
  Mikado is a lightweight Python3 pipeline whose purpose is to facilitate the identification of expressed loci from RNA-Seq data * and to select the best models in each locus.

  Python

  •

  GNU Lesser General Public License v3.0

  •18•101•28•0•Updated Feb 7, 2025Feb 7, 2025

• singlecellQC

  Public
  R

  •

  MIT License

  •1•0•1•1•Updated Sep 16, 2024Sep 16, 2024

• CoassemblyPipeline

  Public
  Snakemake pipeline for genome coassembly

  Python

  •

  MIT License

  •0•0•2•0•Updated Aug 21, 2024Aug 21, 2024

• Pre_meet-annotation-workshop-2024

  Public
  EI Annotation Workshop 2024 (Pre-meet)

  MIT License

  •0•0•0•0•Updated Apr 29, 2024Apr 29, 2024

• annotation-workshop-2024

  Public
  EI Annotation Workshop 2024

  MIT License

  •0•1•0•0•Updated Apr 22, 2024Apr 22, 2024

• SkimSeqQC

  Public
  Snakemake pipeline for QC of low-coverage skim-sequencing of G&T seq data

  Python

  •

  MIT License

  •0•0•2•0•Updated Apr 4, 2024Apr 4, 2024

• minos

  Public
  The labyrinth king judges your gene models.

  Python

  •

  GNU Lesser General Public License v3.0

  •1•9•15•0•Updated Feb 14, 2024Feb 14, 2024

• go-patterns

  Public
  Curated list of Go design patterns, recipes and idioms

  Go

  •

  Apache License 2.0

  •2.3k•0•0•0•Updated Aug 7, 2022Aug 7, 2022

• portcullis

  Public
  Splice junction analysis and filtering from BAM files

  bam-filesfilterportcullis+ 2junctionsplice-junctions

  C++

  •

  GNU General Public License v3.0

  •9•40•26•0•Updated Mar 31, 2022Mar 31, 2022

• annotation-workshop-2022

  Public
  MIT License

  •5•1•0•0•Updated Sep 16, 2021Sep 16, 2021

• DToL_asm_hifi

  Public
  Assembly (Hifi), Breaking (10X), Scaffolding (10X) and Polishing (10X) pipeline

  Python

  •0•0•9•0•Updated Jul 23, 2021Jul 23, 2021

• annotation-workshop-2021

  Public
  Repository for preparing the workshop of April 2021

  MIT License

  •0•3•2•0•Updated Apr 9, 2021Apr 9, 2021

• bioconda-recipes

  Public
  Conda recipes for the bioconda channel.

  Shell

  •3.5k•0•0•0•Updated Feb 10, 2021Feb 10, 2021

• CPC2

  Public
  Verbatim Copy of CPC 2.0

  Java

  •3•0•0•0•Updated Jan 29, 2021Jan 29, 2021

• barcode_retrieval

  Public
  Primer-based barcode retrieval and counting from barcoded samples

  R

  •0•1•0•0•Updated Jul 15, 2020Jul 15, 2020

• bgrrl

  Public
  Python

  •0•0•11•0•Updated Mar 19, 2020Mar 19, 2020

• MultiQC

  Public
  Aggregate results from bioinformatics analyses across many samples into a single report.

  Python

  •

  GNU General Public License v3.0

  •625•0•0•0•Updated Mar 13, 2020Mar 13, 2020

• qaa

  Public
  Quality Assurance for Assemblies

  Python

  •

  MIT License

  •0•1•1•0•Updated Sep 11, 2019Sep 11, 2019

• AnnotF

  Public
  AnnotF - A functional Annotation pipeline

  Perl

  •

  MIT License

  •2•0•0•0•Updated Apr 17, 2019Apr 17, 2019

• CRISPRanto

  Public
  CRISPR off-target analysis (i.e. CRISPRs second language)

  Shell

  •

  MIT License

  •0•0•0•0•Updated Sep 19, 2018Sep 19, 2018