Parents (Total: 4)

The searched file hash is included in 4 parent files which include package known and seen by metalookup. A sample is included below:

Key	Value
MD5	747AE4A3E2E4020DB9C78B29A6B16E12
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	2.fc15
PackageVersion	0.9.31
SHA-1	4E7CDA8226D4E74589BF772D5D4A7ADB3BC75611
SHA-256	0BEE7E6EB53DCAAC2F7E424F7F87A090439BB092C7E94D77368B08E6155B0ECD

Key	Value
MD5	C2EAD84C9A369FFE6B863D81A6C6FEA3
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	2.fc15
PackageVersion	0.9.31
SHA-1	E0A5B98730133AEE3F118FD5FE9A87B427543D15
SHA-256	058ADDF5FF534083F1EB218FE815A501C16F79D124DD8A20BEC7E462CF954922

Key	Value
MD5	A1133F9DFD7C56B702A31F5418AA8453
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	2.fc15
PackageVersion	0.9.31
SHA-1	546CB9159F9F7CA179E25A5BD9AD32DA5AAACEA9
SHA-256	FD223D299ECA01983190B354E23856224868586DC6C9B1CC9C89CE719BBDC269

Key	Value
MD5	99F1515439FB770832FCAC4E146D54BC
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	2.fc15
PackageVersion	0.9.31
SHA-1	127A332F6AF2528338AAC6A336713504A98F46A6
SHA-256	E88E40D877A66C4D2C6435B97196C0D69492145F322D82313B9C3376056144DC