R-Rsolid-0.9.31-20.fc24$>]/~r&{>:#?#d   h $HL[jw D   4    0 >l   (89H:GHIX Y(\H]^bd e f l t u!Tv!w"x#y###CR-Rsolid0.9.3120.fc24Quantile normalization and base calling for second generation sequencing data 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.Y.;buildvm-20.phx2.fedoraproject.org:Fedora ProjectFedora ProjectArtistic 2.0Fedora ProjectApplications/Engineeringhttp://rafalab.jhsph.edu/Rsolid/linuxi686Gn.dz @a Cc7 iA큤A큤A큤A큤A큤A큤AY.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.1Y.2Y.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-Rsolid-0.9.31-20.fc24.src.rpmR-RsolidR-Rsolid(x86-32) @@@@@@@    @R-corelibR.solibc.so.6libc.so.6(GLIBC_2.0)libc.so.6(GLIBC_2.1.3)libc.so.6(GLIBC_2.3.4)libc.so.6(GLIBC_2.4)libhdf5.so.10rpmlib(CompressedFileNames)rpmlib(FileDigests)rpmlib(PayloadFilesHavePrefix)rpmlib(PayloadIsXz)rtld(GNU_HASH)3.4.03.0.4-14.6.0-14.0-15.2-14.13.0.1Y.@X@VV@UUXTS@S@Q@Q@Qg@Q@P@O@Nk@M@Mc@MOLrbLZL@IL@IL;L3L@Tom Callaway - 0.9.31-20Fedora Release Engineering - 0.9.31-19Fedora Release Engineering - 0.9.31-18Orion Poplawski - 0.9.31-17Fedora Release Engineering - 0.9.31-16Orion Poplawski - 0.9.31-15Orion Poplawski - 0.9.31-14Fedora Release Engineering - 0.9.31-13Fedora Release Engineering - 0.9.31-12Fedora Release Engineering - 0.9.31-11Orion Poplawski - 0.9.31-10Tom Callaway - 0.9.31-9Fedora Release Engineering - 0.9.31-8Fedora Release Engineering - 0.9.31-7Fedora Release Engineering - 0.9.31-6Tom Callaway - 0.9.31-5Adam Huffman - 0.9.31-4Orion Poplawski - 0.9.31-3Fedora Release Engineering - 0.9.31-2Adam Huffman - 0.9.31-1Adam Huffman - 0.9.3-1Adam Huffman - 0.9.2-4Adam Huffman - 0.9.2-3Adam Huffman - 0.9.2-2Adam Huffman - 0.9.2-1Adam Huffman - 0.9.1-1- rebuild for R 3.4.0- Rebuilt for https://fedoraproject.org/wiki/Fedora_26_Mass_Rebuild- Rebuilt for https://fedoraproject.org/wiki/Fedora_24_Mass_Rebuild- Rebuild for hdf5 1.8.16- Rebuilt for https://fedoraproject.org/wiki/Fedora_23_Mass_Rebuild- Rebuild for hdf5 1.8.15- Rebuild for hdf5 1.8.14- Rebuilt for https://fedoraproject.org/wiki/Fedora_21_22_Mass_Rebuild- Rebuilt for https://fedoraproject.org/wiki/Fedora_21_Mass_Rebuild- Rebuilt for https://fedoraproject.org/wiki/Fedora_20_Mass_Rebuild- Rebuild for hdf5 1.8.11- rebuild for R3- Rebuilt for https://fedoraproject.org/wiki/Fedora_19_Mass_Rebuild- Rebuilt for https://fedoraproject.org/wiki/Fedora_18_Mass_Rebuild- Rebuilt for https://fedoraproject.org/wiki/Fedora_17_Mass_Rebuild- rebuild for R 2.14.0- remove executable files to pass check- Rebuild for hdf5 1.8.7- Rebuilt for https://fedoraproject.org/wiki/Fedora_15_Mass_Rebuild- another upstream bugfix release- New upstream bugfix release- fix duplicated files entries- new upstream release with licensing clarification - specfile cleanups to address reviewer comments: - directory ownership - requires- spec formatting cleanups- new release with ability to disable bundled HDF5 - fix files section - -devel subpackage- initial package for Fedora 0.9.31-20.fc240.9.31-20.fc24RsolidDESCRIPTIONINDEXMetaRd.rdsdata.rdsfeatures.rdshsearch.rdslinks.rdsnsInfo.rdspackage.rdsNAMESPACERRsolidRsolid.rdbRsolid.rdxdataprop.Hs.rdahelpAnIndexRsolid.rdbRsolid.rdxaliases.rdspaths.rdshtml00Index.htmlR.cssRsolid.htmllibsRsolid.so/usr/lib/R/library//usr/lib/R/library/Rsolid//usr/lib/R/library/Rsolid/Meta//usr/lib/R/library/Rsolid/R//usr/lib/R/library/Rsolid/data//usr/lib/R/library/Rsolid/help//usr/lib/R/library/Rsolid/html//usr/lib/R/library/Rsolid/libs/-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tablesdrpmxz2i686-redhat-linux-gnudirectoryASCII textHTML document, ASCII textELF 32-bit LSB shared object, Intel 80386, version 1 (SYSV), dynamically linked, BuildID[sha1]=a2606f013eb9c49fc823c532db13feb5250b0049, strippedRRRRRRRR utf-8?`7zXZ !#,I5]"k%j1&qB]H Ұ\/E3y>kH'ϗZ0B%ɔ2؇p}m^&mvJx]Sc 僖͹CȐ]:)m3"T(Y$ü aUXL!݂ _\T^iMC糗։Gӡ4T/uNo26[zqb@;*mK9 TWI$pcX$a- -{aM R 6O3eV<%obnS R0>cRNث@;6!Sv[ 蝙]w@7]kD!2c攦~nC^Y:lt]?Ȝn3>դ6-N)UxOtGH@/Ʋ1j)jW&2]&4d((\:(*pMTa.vJGBf9Q5H3DwIq]*kH<5 =_3Nd =rwblUy&&cJ.}?YPub(rsCm HOvH4.C?UY]f5)ƒr~!ޭoW.u4m18Nܗc6fU FQ|5FW'aFJ7eqމ:ӢMLHHu p,WTF߸ 3M4Fj+A8 ̓I$L"9kɴ$`XĜq(- mM(U3r;yT&pgwҝI7݀1|>SJzZ;>t3'T]d0tcf4l2yʹ~Έm@(3C"#Tf`H[ضnT]0!^\Xщ*TB\U,K߮\DЗ%< x_.oom& ! 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