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	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	19A0A6BE31C9461B50446F1BF6C1B058
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	9.fc19
PackageVersion	0.9.31
SHA-1	D5733EF1BC2B1CC6D454C93E57E0A00CBC24D09F
SHA-256	516592025DB5F60060AE754CB924E15F9D4140DB5047838C5686DBA9EF0766BA

Key	Value
MD5	DEB516E2EAFF7B8AFD16B1C63D9A1013
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	9.fc19
PackageVersion	0.9.31
SHA-1	75C41F3AC9780122A18BF098D6D5C7C0C622D01F
SHA-256	2C1961A44EC177518C3415248DC984344266E8E1E8005D7BBB61E3A0F423AEDB

Key	Value
MD5	75B8FBC1F4B8DBA9DE75F2F4C8AAD0E5
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	9.fc19
PackageVersion	0.9.31
SHA-1	FB3A4ABCEA4CC2786CC5283447929633E61049BC
SHA-256	8F647418A47024E16C4B2892F8913CDF3E15D23567F68E9FC5E3974F82ED3705

Key	Value
MD5	2D3F8E99399D4D3D9B82A7991D72566B
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	Fedora Project
PackageName	R-Rsolid
PackageRelease	9.fc19
PackageVersion	0.9.31
SHA-1	8F41CB40EAF6A375E13D873A33D71D4618B794E4
SHA-256	DFF2B7D156752F5254E335BAF940C793A04ADD82D664D3F3A699F15DA4454CB1