Repositories list

• mg_assembly

  Public
  Genome-resolved metagenomics pipeline.

  Python

  •1•1•0•1•Updated Nov 15, 2024Nov 15, 2024

• mt_quant

  Public
  Python

  •

  MIT License

  •1•0•0•1•Updated Nov 12, 2024Nov 12, 2024

• ht_quant

  Public
  Repository containing bioinformatic code for macro-scale host transcriptomic data processing

  pipeline

  Python

  •

  Other

  •1•0•0•0•Updated Nov 12, 2024Nov 12, 2024

• hg_genotype

  Public
  Python

  •

  MIT License

  •1•1•0•0•Updated Nov 12, 2024Nov 12, 2024

• mg_quant

  Public
  Snakemake pipeline for detection limit test

  pipeline

  Python

  •

  MIT License

  •0•0•0•0•Updated Oct 31, 2024Oct 31, 2024

• ANCU003_bgu_strains

  Public
  Metatranscriptomic analyses of BGU strains

  0•0•0•0•Updated Oct 24, 2024Oct 24, 2024

• mg_annotate

  Public
  Just annotate the MAGs as in mg_assembly

  Python

  •0•0•0•0•Updated Oct 4, 2024Oct 4, 2024

• ANMI014_chicken_LMD_methods

  Public
  Analyses of all the metagenomic microsamples from chicken

  HTML

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

• ANMI012_microsample_size

  Public
  Data analysis repository of the microsample size experiment

  TeX

  •0•0•0•0•Updated Aug 9, 2024Aug 9, 2024

• ANMI013_automation_test

  Public
  Analysis repository of the Dreamprep automation test

  TeX

  •0•0•0•0•Updated Aug 9, 2024Aug 9, 2024

• ANMI011_two_chicken_colon

  Public
  TeX

  •0•0•0•0•Updated Jul 2, 2024Jul 2, 2024

• ANMI008_two_chicken_caecum

  Public
  TeX

  •0•0•0•0•Updated Jun 18, 2024Jun 18, 2024

• ANMI007_colon_test

  Public
  Analysis code of the colon microdissection test

  TeX

  •0•0•0•0•Updated Jun 18, 2024Jun 18, 2024

• AMAC001_fibre_trial

  Public
  Analysis repository of the experiment 7.3 on mannan fibre consumption in swine

  analysismacro-scale

  HTML

  •0•0•0•0•Updated Jun 14, 2024Jun 14, 2024

• AMAC006_protein_trial

  Public
  Data analysis repository of the nitrogen deposition trial

  TeX

  •0•0•0•0•Updated Jun 13, 2024Jun 13, 2024

• ANMI006_volume_adaptor_test

  Public
  Data analysis of the half-volume reaction and Celero adaptor test

  analysismicro-scale

  TeX

  •0•0•0•0•Updated May 4, 2024May 4, 2024

• AMAC005_salmonella_trial

  Public
  Data analysis code for the poultry Salmonella trial

  analysismacro-scale

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

• AMAC003_gsmn_for_simulations

  Public
  Genome-scale metabolic network analysis of chicken microbiota for microbiome simulations

  analysismacro-scale

  0•0•0•0•Updated Mar 9, 2024Mar 9, 2024

• AMAC002_salmonella_trial

  Public
  Repository of salmonella trial analysis

  analysismacro-scale

  HTML

  •0•0•0•0•Updated Feb 8, 2024Feb 8, 2024

• AMAC004_probe_validation

  Public
  Validation of 16S probes

  0•0•0•0•Updated Feb 8, 2024Feb 8, 2024

• probe_design

  Public
  Probe design pipeline

  0•0•0•0•Updated Jan 23, 2024Jan 23, 2024

• .github

  Public
  Entry page to the 3D'omics code hub

  1•0•0•0•Updated Jan 10, 2024Jan 10, 2024

• Bioinfo_Micro_LMD_export

  Public
  Data export from LMD

  R

  •0•0•0•0•Updated Aug 30, 2023Aug 30, 2023