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-rw-r--r--gn/packages/bioinformatics.scm38
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)))