@pirovc
github

pirovc

Twitter logo Share LinkedIn logo Share Facebook logo Share
  • Stars
    star
    310
  • Global Rank 86,744 (Top 3 %)
  • Followers 46
  • Registered over 11 years ago
  • Most used languages
    Python
         83.3 %
    Shell
         8.3 %
    MATLAB
         8.3 %
  • Location 🇩🇪 Germany
  • Country Total Rank 4,879
  • Country Ranking
    Shell
         315
    MATLAB
         604
    Python
         1,116

Top repositories

1

genome_updater

Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy
Shell
132
star
2

ganon

ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hierarchical classification, customized reporting and more
Python
81
star
3

multitax

Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)
Python
35
star
4

metameta

Python
23
star
5

grimer

GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and metadata with focus on contamination detection.
Python
13
star
6

dudes

DUDes: a top-down taxonomic profiler for metagenomics and metaproteomics
Python
8
star
7

taxsbp

TaxSBP - Taxonomic structured bin packing implementation
Python
8
star
8

metabench

MetaBench is a pipeline to run and benchmark metagenomics tools. It covers database construction, taxonomic binning and profiling.
Python
4
star
9

fgap

an automated gap closing tool
MATLAB
3
star
10

ganon_benchmark

benchmarking scripts for ganon
Python
1
star
11

metametamerge

Python
1
star
12

pylca

Lowest common ancestor (LCA) algorithm implementation in Python
Python
1
star