Parents (Total: 5)

The searched file hash is included in 5 parent files which include package known and seen by metalookup. A sample is included below:

Key	Value
MD5	2DEB3D129989A527ECD6F537A56B7757
PackageArch	s390
PackageDescription	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.
PackageMaintainer	Fedora Project
PackageName	R-Rsolid
PackageRelease	14.fc22
PackageVersion	0.9.31
SHA-1	6FCA5AAD9A0ED81C9A6D6CD90F07F5F37C9E5F9D
SHA-256	915E3769869AF82195B3C7410535F150560B55EB5C9B21DFD82398905F9CAFD6

Key	Value
MD5	0E6C6EF234DEFCD727BB7B91EE2A26A7
PackageArch	s390x
PackageDescription	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.
PackageMaintainer	Fedora Project
PackageName	R-Rsolid
PackageRelease	14.fc22
PackageVersion	0.9.31
SHA-1	071A0ABEC65452F78DB94941A4E6763983BA4212
SHA-256	74A907FD50D102B29FD977AA9BE90800D90F290C71A7B2A7FFD6C1059024E914

Key	Value
MD5	09BDC2D179424398439D2C4BFF9AD415
PackageArch	ppc64le
PackageDescription	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.
PackageMaintainer	Fedora Project
PackageName	R-Rsolid
PackageRelease	14.fc22
PackageVersion	0.9.31
SHA-1	B3F0F3343949D6724A503FCCC5DE084186C9093C
SHA-256	223F650E06B254031B7777F2EA61FF6246092ED09853985A6C820488B6240E10

Key	Value
MD5	BA1601DC6DC119FB8F7BA2820962A942
PackageArch	aarch64
PackageDescription	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.
PackageMaintainer	Fedora Project
PackageName	R-Rsolid
PackageRelease	14.fc22
PackageVersion	0.9.31
SHA-1	F218D76BEAD56B125B7F89EC98695D35DDBE2E53
SHA-256	721ED745E0999C1EA83D4F8FF14B421155D9DADE15D84AEA547DDF40087AF29F

Key	Value
MD5	77E0EF9448722FBADF5868B0E124F4E5
PackageArch	ppc64
PackageDescription	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.
PackageMaintainer	Fedora Project
PackageName	R-Rsolid
PackageRelease	14.fc22
PackageVersion	0.9.31
SHA-1	4A9A0C4128E7602DDF385A82C5D746FD82C057FA
SHA-256	9E19C8D30A6421489E50A1FC12C3228F36C5F6CBBDA4F73976BD70E2E7E58783