Sat, 02 Jul 2022 07:53:46 UTC

Information for build R-Rsolid-0.9.31-29.fc31

ID1349966
Package NameR-Rsolid
Version0.9.31
Release29.fc31
Epoch
Sourcegit+https://src.fedoraproject.org/rpms/R-Rsolid.git#b82c11d5e4af345782e9ce5ca861878f6e6691fd
SummaryQuantile normalization and base calling for second generation sequencing data
Description 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.
Built byqulogic
State complete
Volume DEFAULT
StartedMon, 12 Aug 2019 10:58:19 UTC
CompletedMon, 12 Aug 2019 11:19:46 UTC
Taskbuild (rawhide, /rpms/R-Rsolid.git:b82c11d5e4af345782e9ce5ca861878f6e6691fd)
Extra{'source': {'original_url': 'git+https://src.fedoraproject.org/rpms/R-Rsolid.git#b82c11d5e4af345782e9ce5ca861878f6e6691fd'}}
Tags
f31
f31-Beta
f31-updates-pending
f32
RPMs
src
R-Rsolid-0.9.31-29.fc31.src.rpm (info) (download)
aarch64
R-Rsolid-0.9.31-29.fc31.aarch64.rpm (info) (download)
R-Rsolid-devel-0.9.31-29.fc31.aarch64.rpm (info) (download)
R-Rsolid-debuginfo-0.9.31-29.fc31.aarch64.rpm (info) (download)
R-Rsolid-debugsource-0.9.31-29.fc31.aarch64.rpm (info) (download)
armv7hl
R-Rsolid-0.9.31-29.fc31.armv7hl.rpm (info) (download)
R-Rsolid-devel-0.9.31-29.fc31.armv7hl.rpm (info) (download)
R-Rsolid-debuginfo-0.9.31-29.fc31.armv7hl.rpm (info) (download)
R-Rsolid-debugsource-0.9.31-29.fc31.armv7hl.rpm (info) (download)
i686
R-Rsolid-0.9.31-29.fc31.i686.rpm (info) (download)
R-Rsolid-devel-0.9.31-29.fc31.i686.rpm (info) (download)
R-Rsolid-debuginfo-0.9.31-29.fc31.i686.rpm (info) (download)
R-Rsolid-debugsource-0.9.31-29.fc31.i686.rpm (info) (download)
ppc64le
R-Rsolid-0.9.31-29.fc31.ppc64le.rpm (info) (download)
R-Rsolid-devel-0.9.31-29.fc31.ppc64le.rpm (info) (download)
R-Rsolid-debuginfo-0.9.31-29.fc31.ppc64le.rpm (info) (download)
R-Rsolid-debugsource-0.9.31-29.fc31.ppc64le.rpm (info) (download)
s390x
R-Rsolid-0.9.31-29.fc31.s390x.rpm (info) (download)
R-Rsolid-devel-0.9.31-29.fc31.s390x.rpm (info) (download)
R-Rsolid-debuginfo-0.9.31-29.fc31.s390x.rpm (info) (download)
R-Rsolid-debugsource-0.9.31-29.fc31.s390x.rpm (info) (download)
x86_64
R-Rsolid-0.9.31-29.fc31.x86_64.rpm (info) (download)
R-Rsolid-devel-0.9.31-29.fc31.x86_64.rpm (info) (download)
R-Rsolid-debuginfo-0.9.31-29.fc31.x86_64.rpm (info) (download)
R-Rsolid-debugsource-0.9.31-29.fc31.x86_64.rpm (info) (download)
Logs
x86_64
hw_info.log
build.log
root.log
state.log
mock_output.log
ppc64le
state.log
root.log
hw_info.log
build.log
mock_output.log
aarch64
root.log
state.log
hw_info.log
build.log
mock_output.log
i686
root.log
build.log
hw_info.log
state.log
mock_output.log
s390x
root.log
hw_info.log
build.log
state.log
mock_output.log
armv7hl
build.log
root.log
hw_info.log
state.log
mock_output.log
Changelog * Mon Aug 12 2019 Elliott Sales de Andrade <quantum.analyst@gmail.com> - 0.9.31-29 - Remove explicit dependencies provided by automatic dependency generator * Wed Jul 24 2019 Fedora Release Engineering <releng@fedoraproject.org> - 0.9.31-28 - Rebuilt for https://fedoraproject.org/wiki/Fedora_31_Mass_Rebuild * Sat Mar 16 2019 Orion Poplawski <orion@nwra.com> - 0.9.31-27 - Rebuild for hdf5 1.10.5 * Thu Jan 31 2019 Fedora Release Engineering <releng@fedoraproject.org> - 0.9.31-26 - Rebuilt for https://fedoraproject.org/wiki/Fedora_30_Mass_Rebuild * Thu Jul 12 2018 Fedora Release Engineering <releng@fedoraproject.org> - 0.9.31-25 - Rebuilt for https://fedoraproject.org/wiki/Fedora_29_Mass_Rebuild * Fri May 18 2018 Tom Callaway <spot@fedoraproject.org> - 0.9.31-24 - rebuild for R 3.5.0 * Wed Feb 07 2018 Fedora Release Engineering <releng@fedoraproject.org> - 0.9.31-23 - Rebuilt for https://fedoraproject.org/wiki/Fedora_28_Mass_Rebuild