metagenomes topic
SqueezeMeta
A complete pipeline for metagenomic analysis
mag
Assembly and binning of metagenomes
PlasFlow
Software for prediction of plasmid sequences in metagenomic assemblies
gretel
An algorithm for recovering haplotypes from metagenomes
pyrodigal
Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!
partie
PARTIE is a program to partition sequence read archive (SRA) metagenomics data into amplicon and shotgun data sets. The user-supplied annotations of the data sets can not be trusted, and so PARTIE all...
metacache
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
Recycler
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...
Cenote-Taker2
Cenote-Taker2: Discover and Annotate Divergent Viral Contigs (Please use Cenote-Taker 3 instead)
mixs
Minimum Information about any (X) Sequence” (MIxS) specification