Parents (Total: 12)

The searched file hash is included in 12 parent files which include package known and seen by metalookup. A sample is included below:

Key	Value
MD5	CB198B2C878F488C0E4E1B1EEE6BC919
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	7.fc18
PackageVersion	0.9.31
SHA-1	8BB5DEBBAF23AE5BEF12AFD0E4014DB9795F7026
SHA-256	EF81DA7BC2F0D63FDD95690BA29660AD9568253A9D50FE06CEC5E099256C9A3F

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	7381166D11926B0FD9ECB72FE7A3CAA0
PackageArch	armv5tel
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	6.fc17
PackageVersion	0.9.31
SHA-1	77D1C6C88003B1B495647F0A7B501DF035B0C730
SHA-256	1C3EF99E8701F7E066B87E684E2AC28DF94A6E7C71D7AC7FC2199CD166EAE6CB

Key	Value
MD5	0473B38CFA5B2D5A1F1B46D4222EEDC5
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	7.fc18
PackageVersion	0.9.31
SHA-1	996949DCD3C51AFDB520CBD7A3166E5AB9AD8BE1
SHA-256	1094F1B71F884C69E2A414EF42CB3C50E8C7D97F6D57D81648F2A9029DEB80B8

Key	Value
MD5	F6649DCFD6D6683BDDB5A66D25769AC1
PackageArch	armv5tel
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	D25F1780E765D20EB5C4915AD1AB2A915BADFDDD
SHA-256	5D5A8BFB1EA368B67DC23B6BDE06A54331EFEC1CED6908600AB4C0A0C328EFDD

Key	Value
MD5	7B8AF1DACA4B381A2F82496C9DF695B9
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	6.fc17
PackageVersion	0.9.31
SHA-1	F7981AB30286362C0656E6C43503F16B6C5AD296
SHA-256	384AD4387AC543C0CDD56ECA40F5EE4F6E69D454B0E386C57F927AE95DE63A2B

Key	Value
MD5	7880DDB39D48568B3862BC1234882CAC
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	6.fc17
PackageVersion	0.9.31
SHA-1	A1AAD2267E7D1BBD37398D4C1EFF2BE814AD2690
SHA-256	222CB5941E019CA26E21CA02FE7013D1181A25EBD433DB513C5C840A54E8CE6A

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	2DAE68156652977406C775A524DDED53
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	6.fc17
PackageVersion	0.9.31
SHA-1	E1536BEC6791FCFB8F933B471A80C915087B5FC2
SHA-256	B928A0356840BD6F8F8EEF85EF0050A15041A0F4BB997CB358A6A61D7F4BA968

Key	Value
MD5	8ABD6E19DAD1A5390711A001B79E8ECA
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	6.fc17
PackageVersion	0.9.31
SHA-1	701AD172246B0A195B2DBA3E78CADE6ECD09158D
SHA-256	820F57AE0BC056B84CD1CC291E321198AA24D3D544CE27047851A1007386F695

Key	Value
MD5	5FAA035B168601BE667E7634791C5925
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	7.fc18
PackageVersion	0.9.31
SHA-1	AA17349E9DC7650E4F023220DEA93919C05E47D3
SHA-256	A31FC52E83D756055F1D2BCBA18F22971BDB6D505841804153A2AF76FE9BF5C5