USDA-ARS Genomics and Bioinformatics Research Unit (@USDA-ARS-GBRU)
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USDA-ARS-GBRU

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  • Stars
    star
    85
  • Global Org. Rank 62,387 (Top 20 %)
  • Registered over 7 years ago
  • Most used languages
    Python
         33.3 %
    R
         22.2 %
    Shell
         16.7 %
    Perl
         11.1 %
    Nextflow     5.6 %
    Jupyter Notebook
         5.6 %
    HTML
         5.6 %
  • Location πŸ‡ΊπŸ‡Έ United States
  • Country Total Rank 59,511
  • Country Ranking
    Nextflow     88
    Perl
         1,719
    R
         3,853
    Shell
         7,119

Top repositories

1

PanPipes

Test sets and pipeline scripts for pan-genomic graph analysis
Python
15
star
2

metagenomics

Tutorial for Metagenomics Analyses
Shell
8
star
3

itsxpress

Software to trim the ITS region of FASTQ sequences for amplicon sequencing analysis
Python
8
star
4

q2_itsxpress

A plugin for qiime2 that runs ITSxpress
Python
6
star
5

GuideMaker

GuideMaker: Software to design CRISPR-Cas guide RNA pools in non-model genomes
Python
6
star
6

vica

Vica: Software to identify highly divergent DNA and RNA viruses and phages in microbiomes
Python
5
star
7

QTLsurge

Software for iterative genotyping design in a QTL-seq experiment
Perl
3
star
8

Grass_annotation_pipeline

Shell
3
star
9

crossword

R
2
star
10

branchwater-web

web app for search of SRA with Mastiff
HTML
2
star
11

itsxpress-tutorial

A tutorial for the QIIME2 forum
2
star
12

ml-training-site

Website for the USDA-ARS / UF Machine Learning Training 2019
Jupyter Notebook
2
star
13

GEERU_workshop

thoe 2024 GEERU/MSU scoping workshop in Starkville, MS
2
star
14

tamipami

A tool for finding the TAM and PAM sites of new Cas and transposon endonucleases from NGS screens
Python
1
star
15

PeeDeeCottonBreedingProgram_Diversity

Supplemental materials for Billings et al *G3* (2021).
R
1
star
16

Ssec_Raleigh

Developing reference genome assembly for Stenotaphrum secundatum cultivar Raleigh
Shell
1
star
17

Citrus_GCMS

GC-MS analysis for citrus high throughput identification of knowns
1
star
18

HaploStrata

R app for viewing haplotype change over time
R
1
star
19

US_rice

Key programs/scripts used in manuscript "Gene disruption by structural mutations drives selection in US rice breeding over the last century"
Perl
1
star
20

Virginia-Type_Peanut_Genomic_Tool_Development

1
star
21

GuideMaker_paper

Scripts to parse timelogs from slurm and generate performance graphics
R
1
star
22

wiv_protein_domain

An analysis to find metagenomic instances of the WIV insect viral protein domain
Nextflow
1
star