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| author | Arun Isaac | 2024-04-19 17:16:33 +0100 |
|---|---|---|
| committer | Arun Isaac | 2024-04-19 17:16:33 +0100 |
| commit | 931c99dd43bd155013606cac563d203026d8d443 (patch) | |
| tree | 826198f62fd634f74b966d5cc3a6939e67bbdc7f /gn | |
| parent | 3783f8b1865117e54c968ecc4dad0af5e57d5995 (diff) | |
| download | guix-bioinformatics-931c99dd43bd155013606cac563d203026d8d443.tar.gz | |
gn: Add hifiasm.
* gn/packages/bioinformatics.scm (hifiasm): New variable.
Diffstat (limited to 'gn')
| -rw-r--r-- | gn/packages/bioinformatics.scm | 38 |
1 files changed, 38 insertions, 0 deletions
diff --git a/gn/packages/bioinformatics.scm b/gn/packages/bioinformatics.scm index 82caab9..ed6d4d4 100644 --- a/gn/packages/bioinformatics.scm +++ b/gn/packages/bioinformatics.scm @@ -4620,3 +4620,41 @@ on a set of samples with sequencing reads in BAM format, as well as a list of positions to genotype, and outputs imputed genotypes in VCF format.") (license license:gpl3))) + +(define-public hifiasm + (package + (name "hifiasm") + (version "0.19.8") + (source + (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/chhylp123/hifiasm") + (commit version))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "1g6m2qdc0224vjaic87669g7y9ky1yps07qbjkmbh1vakz4zmgvr")))) + (build-system gnu-build-system) + (arguments + (list #:tests? #f + #:phases + #~(modify-phases %standard-phases + (delete 'configure) + (replace 'install + (lambda _ + (install-file "hifiasm" (string-append #$output "/bin")) + (install-file "hifiasm.1" (string-append #$output "/share/man/man1"))))))) + (inputs + (list zlib)) + (home-page "https://github.com/chhylp123/hifiasm") + (synopsis "haplotype-resolved assembler for accurate Hifi reads") + (description "Hifiasm is a fast haplotype-resolved de-novo assembler originally +designed for PacBio HiFi reads. Its latest release supports the +telomere-to-telomere assembly by utilizing ultralong Oxford Nanopore +reads. Hifiasm produces arguably the best single-sample +telomere-to-telomere assemblies combing HiFi, ultralong and Hi-C +reads, and it is one of the best haplotype-resolved assemblers for the +trio-binning assembly given parental short reads. For a human genome, +hifiasm can produce the telomere-to-telomere assembly in one day.") + (license license:expat))) |