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looks for a file that has those parameters, you don't put them there directly.Code:-seqList=file
Hope that helps!Code:[[email protected] hg19]$ ./twoBitToFa hg19.2bit:chr1:28735-29810 test.fa [[email protected] hg19]$ head test.fa >chr1:28735-29810 CGCCTCTTTGGGACCGCGGTTTATACTTTCGAAGTGCTCGGAGCCCTTCC TCCAGACCGTTCTCCCACACCCCGCTCCAGGGTCTCTCCCGGAGTTACAA GCCTCGCTGTAGGCCCCGGGAACCCAACGCGGTGTCAGAGAAGTGGGGTC CCCTACGAGGGACCAGGAGCTCCGGGCGGGCAGCAGCTGCGGAAGAGCCG CGCGAGGCTTCCCAGAACCCGGCAGGGGCGGGAAGACGCAGGAGTGGGGA GGCGGAACCGGGACCCCGCAGAGCCCGGGTCCCTGCGCCCCACAAGCCTT GGCTTCCCTGCTAGGGCCGGGCAAGGCCGGGTGCAGGGCGCGGCTCCAGG GAGGAAGCTCCGGGGCGAGCCCAAGACGCCTCCCGGGCGGTCGGGGCCCA GCGGCGGCGTTCGCAGTGGAGCCGGGCACCGGGCAGCGGCCGCGGAACAC
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twoBitToFa usage
Hi, I am having problem with using twoBitToFa -seqList=file command
I tried with start=X, end=X. and these are working properly but I used my command as
twoBitToFa -seqList=chr1:28735-29810 hg19.2bit hg.fa
Couldn't open chr1:28735-29810 , No such file or directory
and also tried
twoBitToFa -seqList=chr1 hg19.2bit hg.fa
Couldn't open chr1 , No such file or directory
can any one please hel me to sort this problem?
Thanks in advance
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