I am trying to use IDP (the latest version). I tested it on your small example data and it perfectly worked. I am trying to analyze my sample, but I got this error
Traceback (most recent call last):
File "/home/madiroma/bin/IDP_0.1.9/bin/blat_best.py", line 33, in <module>
if Qname == ls[9]:
IndexError: list index out of range
Long reads were renamed by seqtools, so this is the content of my LR_notailspolyA.fa.aa.psl (input to blat_best.py)
psLayout version 3
match mis- rep. N's Q gap Q gap T gap T gap strand Q Q Q Q T T T T block blockSizes qStarts tStarts
match match count bases count bases name size start end name size start end count
---------------------------------------------------------------------------------------------------------------------------------------------------------------
286 18 0 0 2 14 2 316 + m150101_010101_11111_c111111111111111111_s1_p0/1/ccs 659 341 659 chrY 59373566 1305963 1306583 4 25,99,56,124, 341,367,479,535, 1305963,1305988,1306097,1306459,
616 24 0 0 5 19 2 8 + m150101_010101_11111_c111111111111111111_s1_p0/1/ccs 659 0 659 chrX 155270560 32224518 32225166 6 105,35,146,71,269,14, 0,109,153,300,372,645, 32224518,32224624,32224666,32224812,32224883,32225152,
994 46 0 0 2 8 1 6 + m150101_010101_11111_c111111111111111111_s1_p0/2/ccs 1048 0 1048 chr9 141213431 14921375 14922421 3 168,836,36, 0,175,1012, 14921375,14921549,14922385,
...
It seems there is some problem in the name field. Could you please help me?
Thanks,
Maria Angela
Hi,
I am trying to use IDP (the latest version). I tested it on your small example data and it perfectly worked. I am trying to analyze my sample, but I got this error
Long reads were renamed by seqtools, so this is the content of my LR_notailspolyA.fa.aa.psl (input to blat_best.py)
It seems there is some problem in the name field. Could you please help me?
Thanks,
Maria Angela