Australian Centre for Ecogenomics (@Ecogenomics)
Guthub

Ecogenomics

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  • Stars
    star
    726
  • Global Org. Rank 18,958 (Top 7 %)
  • Registered almost 13 years ago
  • Most used languages
    Python
         72.7 %
    Perl
         9.1 %
    Vue     4.5 %
    Scheme
         4.5 %
    Shell
         4.5 %
    C
         4.5 %
  • Location 🇦🇺 Australia
  • Country Total Rank 717
  • Country Ranking
    Scheme
         26
    Python
         79
    Perl
         107
    Vue     249
    C
         486
    Shell
         2,590

Top repositories

1

GTDBTk

GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.
Python
461
star
2

CheckM

Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
Python
285
star
3

gtdb-species-clusters

Toolkit for establishing, updating, and validating GTDB species clusters
Python
20
star
4

BamM

Metagenomics-focused BAM file manipulation
C
15
star
5

GTDBNCBI

The GTDB provides the software infrastructure for working with a large collection of genomic resources. The major goal of this initiative is to provide a phylogenetically consistent taxonomy for archaea and bacteria.
Python
9
star
6

gtdb-itol-decorate

Creates iTOL files for tree decoration, given a set of GTDB genomes.
Python
4
star
7

Mannotator

Microbial annotation pipeline - in progress
Perl
4
star
8

FrankenQIIME

Feel the Franken
Python
4
star
9

basespace_project_downloader

Download project fastq files from BaseSpace
Python
3
star
10

gtdb.ecogenomic.org

https://gtdb.ecogenomic.org/
Vue
2
star
11

ScaffoldM

scaffoldm
Python
2
star
12

ace-guix

GNU Guix package definitions for ACE or otherwise
Scheme
2
star
13

mingle

Australian Centre for Ecogenomics' genome tree database: Taxonomically annotated trees from HMMs and BLAST
Python
2
star
14

api.gtdb.ecogenomic.org

https://api.gtdb.ecogenomic.org/
Python
2
star
15

ace-cluster-orchestrator

A template for distributing jobs across the ACE cluster.
Python
1
star
16

gtdb-migration-tk

Toolkit for updating the GTDB to the next release and test data
Python
1
star
17

gtdb-release-tk

Toolkit for updating the GTDB to the next release and generating data files for the GTDB website.
Python
1
star
18

slamM

slamM: a hybrid metagenomic assembly pipeline
Python
1
star
19

pfam_search

pfam_scan meets hmmsearch.
Perl
1
star
20

bioscripts

A collection of scripts written by ACE members
Shell
1
star
21

PhylogeneticM

Feed the tree...
Python
1
star
22

hatchet

Tools used to split the GTDB-Tk reference tree into smaller sub trees
Python
1
star