R-Rsolid-0.9.31-44.fc39 RPM for x86_64

From Fedora 39 for x86_64 / r

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.

Provides

• R-Rsolid
• R(Rsolid)
• R-Rsolid(x86-64)

Requires

• R(ABI) = 4.3
• R-core
• libR.so()(64bit)
• libc.so.6()(64bit)
• libc.so.6(GLIBC_2.14)(64bit)
• libc.so.6(GLIBC_2.2.5)(64bit)
• libc.so.6(GLIBC_2.3.4)(64bit)
• libc.so.6(GLIBC_2.4)(64bit)
• libhdf5.so.200()(64bit)
• rpmlib(CompressedFileNames) <= 3.0.4-1
• rpmlib(FileDigests) <= 4.6.0-1
• rpmlib(PayloadFilesHavePrefix) <= 4.0-1
• rpmlib(PayloadIsZstd) <= 5.4.18-1
• rtld(GNU_HASH)

License

Artistic 2.0

Changelog

* Wed Jul 19 2023 Fedora Release Engineering <[email protected]> - 0.9.31-44
  - Rebuilt for https://fedoraproject.org/wiki/Fedora_39_Mass_Rebuild
* Wed Apr 26 2023 Florian Weimer <[email protected]> - 0.9.31-43
  - Port configure script to c99
* Fri Apr 21 2023 Iñaki Úcar <[email protected]> - 0.9.31-42
  - R-maint-sig mass rebuild
* Wed Jan 18 2023 Fedora Release Engineering <[email protected]> - 0.9.31-41
  - Rebuilt for https://fedoraproject.org/wiki/Fedora_38_Mass_Rebuild
* Sat Sep 03 2022 Iñaki Úcar <[email protected]> - 0.9.31-40
  - R 4.2.1
* Wed Jul 20 2022 Fedora Release Engineering <[email protected]> - 0.9.31-39
  - Rebuilt for https://fedoraproject.org/wiki/Fedora_37_Mass_Rebuild
* Wed Jan 19 2022 Fedora Release Engineering <[email protected]> - 0.9.31-38
  - Rebuilt for https://fedoraproject.org/wiki/Fedora_36_Mass_Rebuild
* Sun Nov 21 2021 Orion Poplawski <[email protected]> - 0.9.31-37
  - Rebuild for hdf5 1.12.1
* Tue Aug 10 2021 Orion Poplawski <[email protected]> - 0.9.31-36
  - Rebuild for hdf5 1.10.7
* Wed Jul 21 2021 Fedora Release Engineering <[email protected]> - 0.9.31-35
  - Rebuilt for https://fedoraproject.org/wiki/Fedora_35_Mass_Rebuild

Files

/usr/lib/.build-id
/usr/lib/.build-id/ee
/usr/lib/.build-id/ee/5275ac69c6d288a3f326bd3e13f92fce329939
/usr/lib64/R/library/Rsolid
/usr/lib64/R/library/Rsolid/DESCRIPTION
/usr/lib64/R/library/Rsolid/INDEX
/usr/lib64/R/library/Rsolid/Meta
/usr/lib64/R/library/Rsolid/Meta/Rd.rds
/usr/lib64/R/library/Rsolid/Meta/data.rds
/usr/lib64/R/library/Rsolid/Meta/features.rds
/usr/lib64/R/library/Rsolid/Meta/hsearch.rds
/usr/lib64/R/library/Rsolid/Meta/links.rds
/usr/lib64/R/library/Rsolid/Meta/nsInfo.rds
/usr/lib64/R/library/Rsolid/Meta/package.rds
/usr/lib64/R/library/Rsolid/NAMESPACE
/usr/lib64/R/library/Rsolid/R
/usr/lib64/R/library/Rsolid/R/Rsolid
/usr/lib64/R/library/Rsolid/R/Rsolid.rdb
/usr/lib64/R/library/Rsolid/R/Rsolid.rdx
/usr/lib64/R/library/Rsolid/data
/usr/lib64/R/library/Rsolid/data/prop.Hs.rda
/usr/lib64/R/library/Rsolid/help
/usr/lib64/R/library/Rsolid/help/AnIndex
/usr/lib64/R/library/Rsolid/help/Rsolid.html
/usr/lib64/R/library/Rsolid/help/Rsolid.rdb
/usr/lib64/R/library/Rsolid/help/Rsolid.rdx
/usr/lib64/R/library/Rsolid/help/aliases.rds
/usr/lib64/R/library/Rsolid/help/paths.rds
/usr/lib64/R/library/Rsolid/html
/usr/lib64/R/library/Rsolid/html/00Index.html
/usr/lib64/R/library/Rsolid/html/R.css
/usr/lib64/R/library/Rsolid/html/Rsolid.html
/usr/lib64/R/library/Rsolid/libs
/usr/lib64/R/library/Rsolid/libs/Rsolid.so

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Fabrice Bellet, Tue Jul 9 21:55:09 2024