diff options
| author | Yuri Victorovich <yuri@FreeBSD.org> | 2021-05-26 14:39:02 -0700 |
|---|---|---|
| committer | Yuri Victorovich <yuri@FreeBSD.org> | 2021-05-26 15:25:21 -0700 |
| commit | be2fb2f2905d13d5f2463688dbf319f5940cfccc (patch) | |
| tree | d7fa7fae4c4b5e95f22504a6b7d2aa31da1eb68b /biology | |
| parent | 87e5be8f70b9c813c621ee7f4b13a18250b8cdf5 (diff) | |
| download | freebsd-ports-be2fb2f2905d13d5f2463688dbf319f5940cfccc.zip | |
biology/unikmer: New port: Toolkit for nucleic acid k-mer analysis, set operations on k-mers
Diffstat (limited to 'biology')
| -rw-r--r-- | biology/Makefile | 1 | ||||
| -rw-r--r-- | biology/unikmer/Makefile | 19 | ||||
| -rw-r--r-- | biology/unikmer/distinfo | 5 | ||||
| -rw-r--r-- | biology/unikmer/pkg-descr | 12 |
4 files changed, 37 insertions, 0 deletions
diff --git a/biology/Makefile b/biology/Makefile index e5bec235ca01..38761df9c785 100644 --- a/biology/Makefile +++ b/biology/Makefile @@ -185,6 +185,7 @@ SUBDIR += trimmomatic SUBDIR += ucsc-userapps SUBDIR += ugene + SUBDIR += unikmer SUBDIR += vcf-split SUBDIR += vcf2hap SUBDIR += vcflib diff --git a/biology/unikmer/Makefile b/biology/unikmer/Makefile new file mode 100644 index 000000000000..fa7eec68c77b --- /dev/null +++ b/biology/unikmer/Makefile @@ -0,0 +1,19 @@ +PORTNAME= unikmer +DISTVERSIONPREFIX= v +DISTVERSION= 0.18.0 +CATEGORIES= biology + +MAINTAINER= yuri@FreeBSD.org +COMMENT= Toolkit for nucleic acid k-mer analysis, set operations on k-mers + +LICENSE= MIT +LICENSE_FILE= ${WRKSRC}/LICENSE + +USES= go:modules + +GO_MODULE= github.com/shenwei356/unikmer +GO_TARGET= ./${PORTNAME} + +PLIST_FILES= bin/${PORTNAME} + +.include <bsd.port.mk> diff --git a/biology/unikmer/distinfo b/biology/unikmer/distinfo new file mode 100644 index 000000000000..934330ac60cd --- /dev/null +++ b/biology/unikmer/distinfo @@ -0,0 +1,5 @@ +TIMESTAMP = 1622064837 +SHA256 (go/biology_unikmer/unikmer-v0.18.0/v0.18.0.mod) = 6ccade17e0fdfc86ebaa0683f7aab4e3c94019032e0d0f4c78bf957a2a8f9c1b +SIZE (go/biology_unikmer/unikmer-v0.18.0/v0.18.0.mod) = 881 +SHA256 (go/biology_unikmer/unikmer-v0.18.0/v0.18.0.zip) = ff1d28fc6c79d62fc1a240bec03acc604f9ef7375f22548e0cc472c41b5b349d +SIZE (go/biology_unikmer/unikmer-v0.18.0/v0.18.0.zip) = 4273162 diff --git a/biology/unikmer/pkg-descr b/biology/unikmer/pkg-descr new file mode 100644 index 000000000000..7ae41bf53489 --- /dev/null +++ b/biology/unikmer/pkg-descr @@ -0,0 +1,12 @@ +unikmer is a golang package and a toolkit for nucleic acid k-mer analysis, +providing functions including set operation k-mers (sketch) optional with TaxIds +but without count information. + +K-mers are either encoded (k<=32) or hashed (arbitrary k) into uint64, and +serialized in binary file with extension .unik. + +TaxIds can be assigned when counting k-mers from genome sequences, and LCA +(Lowest Common Ancestor) is computed during set opertions including computing +union, intersecton, set difference, unique and repeated k-mers. + +WWW: https://github.com/shenwei356/unikmer |