9 results found Sort:

jtamames
SqueezeMeta jtamames
81
385
gpl-3.0
9
A complete pipeline for metagenomic analysis
pipeline metagenomes metagenomics taxonomic-assignment
Created 2018-03-15
1,303 commits to master branch, last one about a month ago
nf-core
mag nf-core
111
219
mit
161
Assembly and binning of metagenomes
binning nf-core assembly nanopore nextflow pipeline workflow annotation metagenomes metagenomics bioinformatics nanopore-sequencing long-read-sequencing
Created 2018-05-22
2,527 commits to master branch, last one 2 days ago
althonos
pyrodigal althonos
7
144
gpl-3.0
7
Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
simd genome python bioconda prodigal orf-finder metagenomes gene-finding bioinformatics cython-wrapper python-library python-interface
Created 2020-04-26
845 commits to main branch, last one about a month ago
smaegol
PlasFlow smaegol
28
98
gpl-3.0
8
Software for prediction of plasmid sequences in metagenomic assemblies
fasta contigs plasmid plasflow plasmids metagenome prediction tensorflow metagenomes classification plasmid-sequences metagenome-assembly
Created 2017-01-12
89 commits to master branch, last one 3 years ago
Shamir-Lab
Recycler Shamir-Lab
7
57
bsd-3-clause
9
This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye Rozov, Aya Brown Kav, David Bogumil, Naama Shterzer, Eran Halp...
denovo plasmid assembly recycler metagenomes assembly-graph circular-sequences
Created 2015-08-04
181 commits to master branch, last one 3 years ago
muellan
metacache muellan
11
57
gpl-3.0
7
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
fasta fastq genome refseq taxonomy long-reads metagenomes ncbi-refseq metagenomics read-mapping dna-sequences bioinformatics classification metagenomic-data short-read-mapper bioinformatics-tool metagenomic-analysis genomic-data-analysis bioinformatics-algorithms metagenomic-classification
Created 2017-02-07
1,029 commits to master branch, last one 2 months ago
mtisza1
Cenote-Taker2 mtisza1
7
55
mit
2
Cenote-Taker2: Discover and Annotate Divergent Viral Contigs (Please use Cenote-Taker 3 instead)
virus virome genbank hhblits hallmark hhsearch prophage discovery annotation metagenomes cenote-taker2 virus-discovery virus-evolution virus-sequences prophage-prediction cenote-unlimited-breadsticks
Created 2019-09-12
337 commits to master branch, last one 11 months ago
cafferychen777
MicrobiomeStat cafferychen777
5
35
unknown
2
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
dada2 omics qiime2 16s-rrna phyloseq microbiome statistics metagenomes visualization microbiome-data longitudinal-data amplicon-sequencing microbiome-analysis microbiome-workflow metagenomic-analysis omics-data-integration
Created 2023-07-21
672 commits to main branch, last one 27 days ago
althonos
pyskani althonos
1
25
mit
2
PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
ani taxonomy metagenomes bioinformatics python-library python-bindings average-nucleotide-identity
Created 2023-02-02
90 commits to main branch, last one 15 days ago