Parents (Total: 31)

The searched file hash is included in 31 parent files which include package known and seen by metalookup. A sample is included below:

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	6DC22CB598E860FA9F159C434D45B689
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	13.fc21
PackageVersion	0.9.31
SHA-1	208B109F863FE29FCC56C9AB1004CD62E3858274
SHA-256	E2A04407071D32F39AB8E02702AC1C207301C69460C15C43742AD909F524D22B

Key	Value
MD5	77EEFBAB8B025020DDFB7E8A33FE2508
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	9.fc19
PackageVersion	0.9.31
SHA-1	318119A839687BF517823B2EA6850F13A529131F
SHA-256	9FA6ED19F212ABCDED1BC313EA7F9B390450040FA0C98D76317BC047C2306799

Key	Value
MD5	E50F0163345661D73896C5E6908BF9C2
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	13.fc21
PackageVersion	0.9.31
SHA-1	3925FC22754BEC7CECFB54ECF546923B068421A2
SHA-256	0A8A9F4C6E8F27B3FE02F8C3CE74328FD2C1C9EF5BE9D3F729A48CC39E928B4B

Key	Value
MD5	04B136D1C401BF252EC01A13A464ABDA
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	11.fc20
PackageVersion	0.9.31
SHA-1	3C263388AA59865AFEAA074A414B2B91F74B3B80
SHA-256	C3FD4B2151B7A71BBA25725A225EE08FB72D19438ACFD3AC4803B1F0C4C38AD2

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

Key	Value
MD5	5B1F2AD87990140BA08E1AFAD93D44ED
PackageArch	armv7hl
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	7.fc18
PackageVersion	0.9.31
SHA-1	54C7921DFA6D6E544C90394244FFFD21E2883C9F
SHA-256	8371F732F3AA4D044D41C1C3ACF0FD460A4CDAD0370E903F51CF5D8C5101A0EA

Key	Value
MD5	8CBD4837FF171F0F531CA9F4D407E6DC
PackageArch	ppc
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	Koji
PackageName	R-Rsolid
PackageRelease	6.fc17
PackageVersion	0.9.31
SHA-1	56CC0597A5CF3E36CD10A7414693F78F9B24FC3A
SHA-256	8F9864304C4DD03380BC226D816DB520B5B2CCCDBD74279513B33C0B8076CB87

Key	Value
MD5	40C2FA8B9EE5AC322A23A1438EC09E00
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	Koji
PackageName	R-Rsolid
PackageRelease	7.fc18
PackageVersion	0.9.31
SHA-1	5DDA0DADDABD1990C632AC12E4295C4DA0696A6B
SHA-256	0B7304797AFFD4F0363548279450B06036FC42BCAF3E60C81B8BF9A7A4ADFEC7

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