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R-Rsolid-0.9.31-42.fc38.i686.rpm

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توضیحات

Quantile normalization and base calling for second generation sequencing data
ویژگی مقدار
سیستم عامل Linux
توزیع Fedora 38
مخزن Fedora Everything i686
نام بسته R-Rsolid
نام فایل بسته R-Rsolid-0.9.31-42.fc38.i686.rpm
نسخه بسته 0.9.31
انتشار بسته 42.fc38
معماری بسته i686
نگهدارنده -
تاریخ ساخت Sat 22 Apr 2023 02
هاست سازنده buildvm-x86-10.iad2.fedoraproject.org
نوع بسته .rpm
آدرس صفحه اصلی http://rafalab.jhsph.edu/Rsolid/
مجوز Artistic 2.0
حجم دانلود 54K
حجم نصب 60.028K
Rsolid is an R package for normalizing fluorescent intensity data from ABI/SOLiD second generation sequencing platform. It has been observed that the color-calls provided by factory software contain technical artifacts, where the proportions of colors called are extremely variable across sequencing cycles. Under the random DNA fragmentation assumption, these proportions should be equal across sequencing cycles and proportional to the dinucleotide frequencies of the sample. Rsolid implements a version of the quantile normalization algorithm that transforms the intensity values before calling colors. Results show that after normalization, the total number of mappable reads increases by around 5%, and number of perfectly mapped reads increases by 10%. Moreover a 2-5% reduction in overall error rates is observed, with a 2-6% reduction in the rate of valid adjacent color mis-matches. The latter is important, since it leads to a decrease in false-positive SNP calls. The normalization algorithm is computationally efficient. In a test we are able to process 300 million reads in 2 hours using 10 computer cluster nodes. The engine functions of the package are written in C for better performance.


جایگزین ها

بسته نسخه معماری مخزن
R-Rsolid-0.9.31-41.fc38.aarch64.rpm 0.9.31 aarch64 Fedora Everything
R-Rsolid-0.9.31-41.fc38.i686.rpm 0.9.31 i686 Fedora Everything
R-Rsolid-0.9.31-41.fc38.src.rpm 0.9.31 i686 Fedora Everything
R-Rsolid-0.9.31-41.fc38.x86_64.rpm 0.9.31 x86_64 Fedora Everything
R-Rsolid-0.9.31-42.fc38.aarch64.rpm 0.9.31 aarch64 Fedora Everything
R-Rsolid-0.9.31-42.fc38.src.rpm 0.9.31 i686 Fedora Everything
R-Rsolid-0.9.31-42.fc38.x86_64.rpm 0.9.31 x86_64 Fedora Everything
R-Rsolid-debuginfo-0.9.31-41.fc38.aarch64.rpm 0.9.31 aarch64 Fedora Everything
R-Rsolid-debuginfo-0.9.31-41.fc38.i686.rpm 0.9.31 i686 Fedora Everything
R-Rsolid-debuginfo-0.9.31-41.fc38.x86_64.rpm 0.9.31 x86_64 Fedora Everything
R-Rsolid-debuginfo-0.9.31-42.fc38.aarch64.rpm 0.9.31 aarch64 Fedora Everything
R-Rsolid-debuginfo-0.9.31-42.fc38.i686.rpm 0.9.31 i686 Fedora Everything
R-Rsolid-debuginfo-0.9.31-42.fc38.x86_64.rpm 0.9.31 x86_64 Fedora Everything
R-Rsolid-debugsource-0.9.31-41.fc38.aarch64.rpm 0.9.31 aarch64 Fedora Everything
R-Rsolid-debugsource-0.9.31-41.fc38.i686.rpm 0.9.31 i686 Fedora Everything
R-Rsolid-debugsource-0.9.31-41.fc38.x86_64.rpm 0.9.31 x86_64 Fedora Everything
R-Rsolid-debugsource-0.9.31-42.fc38.aarch64.rpm 0.9.31 aarch64 Fedora Everything
R-Rsolid-debugsource-0.9.31-42.fc38.i686.rpm 0.9.31 i686 Fedora Everything
R-Rsolid-debugsource-0.9.31-42.fc38.x86_64.rpm 0.9.31 x86_64 Fedora Everything
R-Rsolid-devel-0.9.31-41.fc38.aarch64.rpm 0.9.31 aarch64 Fedora Everything
R-Rsolid-devel-0.9.31-41.fc38.i686.rpm 0.9.31 i686 Fedora Everything
R-Rsolid-devel-0.9.31-41.fc38.x86_64.rpm 0.9.31 x86_64 Fedora Everything
R-Rsolid-devel-0.9.31-42.fc38.aarch64.rpm 0.9.31 aarch64 Fedora Everything
R-Rsolid-devel-0.9.31-42.fc38.i686.rpm 0.9.31 i686 Fedora Everything
R-Rsolid-devel-0.9.31-42.fc38.x86_64.rpm 0.9.31 x86_64 Fedora Everything


نیازمندی

مقدار نام
= 4.3 R(ABI)
- R-core
- libR.so
- libc.so.6
- libc.so.6(GLIBC_2.0)
- libc.so.6(GLIBC_2.1.3)
- libc.so.6(GLIBC_2.3.4)
- libc.so.6(GLIBC_2.4)
- libhdf5.so.200
- rtld(GNU_HASH)


ارائه دهنده

مقدار نام
= 0.9.31 R(Rsolid)
= 0.9.31-42.fc38 R-Rsolid
= 0.9.31-42.fc38 R-Rsolid(x86-32)


نحوه نصب


نصب پکیج rpm R-Rsolid:

    dnf install R-Rsolid-0.9.31-42.fc38.i686.rpm


فایل ها

مسیرها
/usr/lib/.build-id
/usr/lib/.build-id/70
/usr/lib/.build-id/70/acee8c451d275b85c6b952893793d6e4979aab
/usr/lib/R/library/Rsolid
/usr/lib/R/library/Rsolid/DESCRIPTION
/usr/lib/R/library/Rsolid/INDEX
/usr/lib/R/library/Rsolid/Meta
/usr/lib/R/library/Rsolid/Meta/Rd.rds
/usr/lib/R/library/Rsolid/Meta/data.rds
/usr/lib/R/library/Rsolid/Meta/features.rds
/usr/lib/R/library/Rsolid/Meta/hsearch.rds
/usr/lib/R/library/Rsolid/Meta/links.rds
/usr/lib/R/library/Rsolid/Meta/nsInfo.rds
/usr/lib/R/library/Rsolid/Meta/package.rds
/usr/lib/R/library/Rsolid/NAMESPACE
/usr/lib/R/library/Rsolid/R
/usr/lib/R/library/Rsolid/R/Rsolid
/usr/lib/R/library/Rsolid/R/Rsolid.rdb
/usr/lib/R/library/Rsolid/R/Rsolid.rdx
/usr/lib/R/library/Rsolid/data
/usr/lib/R/library/Rsolid/data/prop.Hs.rda
/usr/lib/R/library/Rsolid/help
/usr/lib/R/library/Rsolid/help/AnIndex
/usr/lib/R/library/Rsolid/help/Rsolid.html
/usr/lib/R/library/Rsolid/help/Rsolid.rdb
/usr/lib/R/library/Rsolid/help/Rsolid.rdx
/usr/lib/R/library/Rsolid/help/aliases.rds
/usr/lib/R/library/Rsolid/help/paths.rds
/usr/lib/R/library/Rsolid/html
/usr/lib/R/library/Rsolid/html/00Index.html
/usr/lib/R/library/Rsolid/html/R.css
/usr/lib/R/library/Rsolid/html/Rsolid.html
/usr/lib/R/library/Rsolid/libs


گزارش تغییرات

تاریخ آخرین تغییر جزئیات
2023-04-21

R-maint-sig mass rebuild

2023-01-18

Rebuilt for https://fedoraproject.org/wiki/Fedora_38_Mass_Rebuild

2022-09-03

R 4.2.1

2022-07-20

Rebuilt for https://fedoraproject.org/wiki/Fedora_37_Mass_Rebuild

2022-01-19

Rebuilt for https://fedoraproject.org/wiki/Fedora_36_Mass_Rebuild

2021-11-21

Rebuild for hdf5 1.12.1

2021-08-10

Rebuild for hdf5 1.10.7

2021-07-21

Rebuilt for https://fedoraproject.org/wiki/Fedora_35_Mass_Rebuild