From 6d3cafa086b380b371d093906390ad610170ff2b Mon Sep 17 00:00:00 2001 From: Ricardo Wurmus Date: Mon, 25 Jan 2021 15:34:23 +0100 Subject: gnu: Add trf. * gnu/packages/bioinformatics.scm (trf): New variable. --- gnu/packages/bioinformatics.scm | 24 ++++++++++++++++++++++++ 1 file changed, 24 insertions(+) diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 8514306f94..1aa60a0ae7 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -2822,6 +2822,30 @@ sequencing data. It uses paired-ends and split-reads to sensitively and accurately delineate genomic rearrangements throughout the genome.") (license license:gpl3+))) +(define-public trf + (package + (name "trf") + (version "4.09.1") + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/Benson-Genomics-Lab/TRF") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 "0fhwr4s1mf8nw8fr5imwjvjr42b59p97zr961ifm8xl1bajz4wpg")))) + (build-system gnu-build-system) + (home-page "https://github.com/Benson-Genomics-Lab/TRF") + (synopsis "Tandem Repeats Finder: a program to analyze DNA sequences") + (description "A tandem repeat in DNA is two or more adjacent, approximate +copies of a pattern of nucleotides. Tandem Repeats Finder is a program to +locate and display tandem repeats in DNA sequences. In order to use the +program, the user submits a sequence in FASTA format. The output consists of +two files: a repeat table file and an alignment file. Submitted sequences may +be of arbitrary length. Repeats with pattern size in the range from 1 to 2000 +bases are detected.") + (license license:agpl3+))) + (define-public diamond (package (name "diamond") -- cgit v1.2.3