diff options
Diffstat (limited to 'gnu')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 37 |
1 files changed, 37 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 063fe7f0944..6cb5ea99eb4 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -1103,6 +1103,43 @@ protocol. It provides a simple and reliable way to retrieve genomic data from servers supporting the protocol.") (license license:asl2.0))) +(define-public python-phylophlan + (package + (name "python-phylophlan") + (version "3.0.3") + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/biobakery/phylophlan") + (commit version))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "1wz70xzxqx2sf5flmf45m15jq027dqijfaj1r51pl50w5x6dkawx")))) + (build-system pyproject-build-system) + (arguments (list #:tests? #f)) ;there are no tests + (propagated-inputs + (list python-biopython + python-dendropy + python-matplotlib + python-numpy + python-pandas + python-seaborn)) + (home-page "https://github.com/biobakery/phylophlan") + (synopsis + "Phylogenetic analysis of microbial isolates and genomes from metagenomes") + (description + "This package is an integrated pipeline for large-scale phylogenetic +profiling of genomes and metagenomes. PhyloPhlAn is an accurate, rapid, and +easy-to-use method for large-scale microbial genome characterization and +phylogenetic analysis at multiple levels of resolution. This software package +can assign both genomes and @acronym{MAGs, metagenome-assembled genomes} to +@acronym{SGBs, species-level genome bins}. PhyloPhlAn can reconstruct +strain-level phylogenies using clade- specific maximally informative +phylogenetic markers, and can also scale to very large phylogenies comprising +>17,000 microbial species.") + (license license:expat))) + (define-public python-pybedtools (package (name "python-pybedtools") |