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Information for build R-Rsolid-0.9.31-48.fc41

ID5127
Package NameR-Rsolid
Links Fedora Package Sources | Fedora Official Koji Buildsystem | Rocks RISC-V Koji Buildsystem | Fedora RISC-V GitHub | Old Koji Buildsystem
Version0.9.31
Release48.fc41
Epoch
DraftFalse
Sourcegit+https://src.fedoraproject.org/rpms/R-Rsolid.git#2fdb3850d9b1e32a484247112380dc140105c67f
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 bykojiadmin
State complete
Volume DEFAULT
StartedTue, 30 Apr 2024 18:45:08 CST
CompletedTue, 30 Apr 2024 19:24:59 CST
Taskbuild (f41, /rpms/R-Rsolid.git:2fdb3850d9b1e32a484247112380dc140105c67f)
Extra{'source': {'original_url': 'git+https://src.fedoraproject.org/rpms/R-Rsolid.git#2fdb3850d9b1e32a484247112380dc140105c67f'}}
Tags
f41
RPMs
src
R-Rsolid-0.9.31-48.fc41.src.rpm (info) (download)
riscv64
R-Rsolid-0.9.31-48.fc41.riscv64.rpm (info) (download)
R-Rsolid-devel-0.9.31-48.fc41.riscv64.rpm (info) (download)
R-Rsolid-debuginfo-0.9.31-48.fc41.riscv64.rpm (info) (download)
R-Rsolid-debugsource-0.9.31-48.fc41.riscv64.rpm (info) (download)
Logs
riscv64
state.log
installed_pkgs.log
root.log
hw_info.log
build.log
mock_output.log
Changelog * Thu Apr 25 2024 Iñaki Úcar <iucar@fedoraproject.org> - 0.9.31-48 - R-maint-sig mass rebuild * Sat Apr 20 2024 Miroslav Suchý <msuchy@redhat.com> - 0.9.31-47 - convert license to SPDX * Mon Jan 22 2024 Fedora Release Engineering <releng@fedoraproject.org> - 0.9.31-46 - Rebuilt for https://fedoraproject.org/wiki/Fedora_40_Mass_Rebuild * Fri Jan 19 2024 Fedora Release Engineering <releng@fedoraproject.org> - 0.9.31-45 - Rebuilt for https://fedoraproject.org/wiki/Fedora_40_Mass_Rebuild * Wed Jul 19 2023 Fedora Release Engineering <releng@fedoraproject.org> - 0.9.31-44 - Rebuilt for https://fedoraproject.org/wiki/Fedora_39_Mass_Rebuild * Wed Apr 26 2023 Florian Weimer <fweimer@redhat.com> - 0.9.31-43 - Port configure script to c99 * Fri Apr 21 2023 Iñaki Úcar <iucar@fedoraproject.org> - 0.9.31-42 - R-maint-sig mass rebuild * Wed Jan 18 2023 Fedora Release Engineering <releng@fedoraproject.org> - 0.9.31-41 - Rebuilt for https://fedoraproject.org/wiki/Fedora_38_Mass_Rebuild * Sat Sep 03 2022 Iñaki Úcar <iucar@fedoraproject.org> - 0.9.31-40 - R 4.2.1 * Wed Jul 20 2022 Fedora Release Engineering <releng@fedoraproject.org> - 0.9.31-39 - Rebuilt for https://fedoraproject.org/wiki/Fedora_37_Mass_Rebuild