dear Biocers*
I have just received data from solexa facility.
I tried the packages ShortRead and Rolexa, but it seems to me they require a
specific file organization with 3 main folder as the imput.
instead I have 2 type of file: the first looks like that
HWI-EAS373 1 2 1 1 1 0 1
NAGCCAGCTTACCTCCCGGTGGTGGGTCGGTGGTCCCTGGGCAGGGGTCTCCCGATCCCGGACGAGCCCCCCAAT
DGPRTTTTRRRTTTRTRTTTTTQPPTSUQPQPTSPSSSSBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
NM Y
HWI-EAS373 1 2 1 2 2 0 1
NATCTGTTCTTGGCCCTGAGCCGGGGCAGGAACTGCTTACCACAGATATCCTGTTTGGCCCATATTCAGCTGTTC
DKWUWUUWVUSWUWWWWUUUWWUWVVWSSSWVWSWUWVWWSSTQUVWWVWUWWQWVWWWQWSRKPWVWVWVUQWW
NM Y
HWI-EAS373 1 2 1 3 3 0 1
NACCTTACACAGTCCTGCTGACCACCCCCACCGCCCTCAAAGTAGACGGCATCGCAGCTTGGATACACGCCGCCC
DLRPPNSPRTTSPRRFSTSTSRRTRPRPSNSPRRNQRNTTRPKTSNRPPPSTTSRTBBBBBBBBBBBBBBBBBBB
NM N
HWI-EAS373 1 2 1 4 4 0 1
NAGTGTTATCACTCATGGTTATGGCAGCACTGCATAATTCTCTTACTGTCATGCCATCCGTAAGATGCTTTTCTG
DOZXZUZZVZZZOXZUZWWUYXXXRZWMMMGWYNYXXTXXXXVBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
NM Y
HWI-EAS373 1 2 1 5 5 0 1
NATAGAATGTCATGGCACTGTTCAGAATGGCATACAACAACGGCCAGGTCTGCAGCCACATCAGGGCAAACACAT
DMWRWSVXYRSNPXXWSPXXXYXUXXXYXTGTUXXSRWUWWYXYWXXYUXYXUXWWVXWVVVRUYXTTTVXXWTW
NM Y
HWI-EAS373 1 2 1 6 6 0 1
NAGTGAGGCACCTATCTCAGCGATCTGTCTATTTCGTTCATCCATAGTTGCCTGACTCCCCGTCGTGTAGATAAC
DKUUYXUXXXXXURYXUXYXXXXYXXYUXWTTXXWVXXUXYYYUYYWSWXVSVXUXWPVWXVVVVVTNTWVVSVB
NM Y
HWI-EAS373 1 2 1 7 7 0 1
NCCTTCTAGTGTAGCCGTAGTTAGGCCACCACTTCAAGAACTCTGTAGCACCGCCTACATACCTCGCTCTGCTAA
DMWYYYUWSWWTYWYWWUWUWWYWYVVWWWWUWWWTVVYYWWWYTUWUWTYUVXTTUSSWVTWWURWUWNSUWQP
NM Y
HWI-EAS373 1 2 1 8 8 0 1
NAGCGTGGGTCCCACTGTATCATTGGGGCACTGGTGCCAGGTTGAAAGTCCACCCGTCACGACCTTCTACACATG
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
NM N
HWI-EAS373 1 2 1 9 9 0 1
NAAACCTCTNACACATGCAGCTCCCGGAGACGGTCACAGCTTGTCTGTAAGCGGATGCCGGGAGCAGACAAGCCC
DKTTSTTTMDNTTSSSTTTTSTTTRSUTRTTTTRSRSNPRRSSPSSTRBBBBBBBBBBBBBBBBBBBBBBBBBBB
NM N
HWI-EAS373 1 2 1 10 10 0 1
NGGTTCTCTAGAAACTGCTGAGGGCTGGACCGCATCTGGGGACCATCTGTTCTTGGCCCTGAGCCGGGGCAGGAA
DKRRTTRSSSSTNOSSNTQKQPNPUTMPPRSSOSSPRRRRSRSRSTBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
NM
the second like this one
HWI-EAS373 1 2 1 1 1 0 1
NAGCCAGCTTACCTCCCGGTGGTGGGTCGGTGGTCCCTGGGCAGGGGTCTCCCGATCCCGGACGAGCCCCCCAAT
DGPRTTTTRRRTTTRTRTTTTTQPPTSUQPQPTSPSSSSBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
NM Y
HWI-EAS373 1 2 1 2 2 0 1
NATCTGTTCTTGGCCCTGAGCCGGGGCAGGAACTGCTTACCACAGATATCCTGTTTGGCCCATATTCAGCTGTTC
DKWUWUUWVUSWUWWWWUUUWWUWVVWSSSWVWSWUWVWWSSTQUVWWVWUWWQWVWWWQWSRKPWVWVWVUQWW
NM Y
HWI-EAS373 1 2 1 3 3 0 1
NACCTTACACAGTCCTGCTGACCACCCCCACCGCCCTCAAAGTAGACGGCATCGCAGCTTGGATACACGCCGCCC
DLRPPNSPRTTSPRRFSTSTSRRTRPRPSNSPRRNQRNTTRPKTSNRPPPSTTSRTBBBBBBBBBBBBBBBBBBB
NM N
HWI-EAS373 1 2 1 4 4 0 1
NAGTGTTATCACTCATGGTTATGGCAGCACTGCATAATTCTCTTACTGTCATGCCATCCGTAAGATGCTTTTCTG
DOZXZUZZVZZZOXZUZWWUYXXXRZWMMMGWYNYXXTXXXXVBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
NM Y
HWI-EAS373 1 2 1 5 5 0 1
NATAGAATGTCATGGCACTGTTCAGAATGGCATACAACAACGGCCAGGTCTGCAGCCACATCAGGGCAAACACAT
DMWRWSVXYRSNPXXWSPXXXYXUXXXYXTGTUXXSRWUWWYXYWXXYUXYXUXWWVXWVVVRUYXTTTVXXWTW
NM Y
HWI-EAS373 1 2 1 6 6 0 1
NAGTGAGGCACCTATCTCAGCGATCTGTCTATTTCGTTCATCCATAGTTGCCTGACTCCCCGTCGTGTAGATAAC
DKUUYXUXXXXXURYXUXYXXXXYXXYUXWTTXXWVXXUXYYYUYYWSWXVSVXUXWPVWXVVVVVTNTWVVSVB
NM Y
HWI-EAS373 1 2 1 7 7 0 1
NCCTTCTAGTGTAGCCGTAGTTAGGCCACCACTTCAAGAACTCTGTAGCACCGCCTACATACCTCGCTCTGCTAA
DMWYYYUWSWWTYWYWWUWUWWYWYVVWWWWUWWWTVVYYWWWYTUWUWTYUVXTTUSSWVTWWURWUWNSUWQP
NM Y
HWI-EAS373 1 2 1 8 8 0 1
NAGCGTGGGTCCCACTGTATCATTGGGGCACTGGTGCCAGGTTGAAAGTCCACCCGTCACGACCTTCTACACATG
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
NM N
HWI-EAS373 1 2 1 9 9 0 1
NAAACCTCTNACACATGCAGCTCCCGGAGACGGTCACAGCTTGTCTGTAAGCGGATGCCGGGAGCAGACAAGCCC
DKTTSTTTMDNTTSSSTTTTSTTTRSUTRTTTTRSRSNPRRSSPSSTRBBBBBBBBBBBBBBBBBBBBBBBBBBB
NM N
HWI-EAS373 1 2 1 10 10 0 1
NGGTTCTCTAGAAACTGCTGAGGGCTGGACCGCATCTGGGGACCATCTGTTCTTGGCCCTGAGCCGGGGCAGGAA
DKRRTTRSSSSTNOSSNTQKQPNPUTMPPRSSOSSPRRRRSRSRSTBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
NM
can i import them in the pipeline of analyses provided by bioconductor?
which package is the most suitable??
*
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