mirror/guix
1
0
Fork 0
mirror of https://git.savannah.gnu.org/git/guix.git synced 2025-02-10 13:40:20 +01:00
Code Issues Projects Releases Packages Wiki Activity Actions

gnu: r-snplocs-hsapiens-dbsnp144-grch37: Move to annotation section.

Browse source 
* gnu/packages/bioconductor.scm (r-snplocs-hsapiens-dbsnp144-grch37): Move
this variable up to the annotation section.
This commit is contained in:
Ricardo Wurmus 2022-04-14 13:37:23 +02:00
parent c8a6e4abbc
commit 03009f2a2b
No known key found for this signature in database
GPG key ID: 197A5888235FACAC
1 changed files with 38 additions and 38 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

76
gnu/packages/bioconductor.scm
View file

@ -775,6 +775,44 @@ Ensembl.")
Ensembl.")
(license license:artistic2.0)))
(define-public r-snplocs-hsapiens-dbsnp144-grch37
(package
(name "r-snplocs-hsapiens-dbsnp144-grch37")
(version "0.99.20")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "SNPlocs.Hsapiens.dbSNP144.GRCh37"
version 'annotation))
(sha256
(base32
"1z8kx43ki1jvj7ms7pcybakcdimfwr6zpjvspkjmma97bdz093iz"))))
(build-system r-build-system)
;; As this package provides little more than a very large data file it
;; doesn't make sense to build substitutes.
(arguments `(#:substitutable? #f))
(propagated-inputs
(list r-biocgenerics
r-s4vectors
r-iranges
r-genomeinfodb
r-genomicranges
r-bsgenome
r-biostrings))
(home-page
"https://bioconductor.org/packages/SNPlocs.Hsapiens.dbSNP144.GRCh37/")
(synopsis "SNP locations for Homo sapiens (dbSNP Build 144)")
(description "This package provides SNP locations and alleles for Homo
sapiens extracted from NCBI dbSNP Build 144. The source data files used for
this package were created by NCBI on May 29-30, 2015, and contain SNPs mapped
to reference genome GRCh37.p13. Note that the GRCh37.p13 genome is a
patched version of GRCh37. However the patch doesn't alter chromosomes 1-22,
X, Y, MT. GRCh37 itself is the same as the hg19 genome from UCSC *except* for
the mitochondrion chromosome. Therefore, the SNPs in this package can be
injected in @code{BSgenome.Hsapiens.UCSC.hg19} and they will land at the
correct position but this injection will exclude chrM (i.e. nothing will be
injected in that sequence).")
(license license:artistic2.0)))
(define-public r-txdb-dmelanogaster-ucsc-dm6-ensgene
(package
(name "r-txdb-dmelanogaster-ucsc-dm6-ensgene")
@ -11271,44 +11309,6 @@ and parameters of which are trained on a set of aligned reads and a reference
genome sequence.")
(license license:lgpl3)))
(define-public r-snplocs-hsapiens-dbsnp144-grch37
(package
(name "r-snplocs-hsapiens-dbsnp144-grch37")
(version "0.99.20")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "SNPlocs.Hsapiens.dbSNP144.GRCh37"
version 'annotation))
(sha256
(base32
"1z8kx43ki1jvj7ms7pcybakcdimfwr6zpjvspkjmma97bdz093iz"))))
(build-system r-build-system)
;; As this package provides little more than a very large data file it
;; doesn't make sense to build substitutes.
(arguments `(#:substitutable? #f))
(propagated-inputs
(list r-biocgenerics
r-s4vectors
r-iranges
r-genomeinfodb
r-genomicranges
r-bsgenome
r-biostrings))
(home-page
"https://bioconductor.org/packages/SNPlocs.Hsapiens.dbSNP144.GRCh37/")
(synopsis "SNP locations for Homo sapiens (dbSNP Build 144)")
(description "This package provides SNP locations and alleles for Homo
sapiens extracted from NCBI dbSNP Build 144. The source data files used for
this package were created by NCBI on May 29-30, 2015, and contain SNPs mapped
to reference genome GRCh37.p13. Note that the GRCh37.p13 genome is a
patched version of GRCh37. However the patch doesn't alter chromosomes 1-22,
X, Y, MT. GRCh37 itself is the same as the hg19 genome from UCSC *except* for
the mitochondrion chromosome. Therefore, the SNPs in this package can be
injected in @code{BSgenome.Hsapiens.UCSC.hg19} and they will land at the
correct position but this injection will exclude chrM (i.e. nothing will be
injected in that sequence).")
(license license:artistic2.0)))
(define-public r-reqon
(package
(name "r-reqon")