User: dfinkels64

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dfinkels640
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Posts by dfinkels64

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gcapc (ChIP seq package) has peakcalling error
... HI Anyone, I've been trying to run my own bam file through this program (gcapc) with  limited success.  After correcting the bam header and  stripping it down to a single chromosome (chr1 hg19) to meet memory requirements. I was able to get all the way through error free to the peak calling step,  ...
gcapc object error written 16 months ago by dfinkels640
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Answer: A: gcpapc package fails at bindWidth step
... Solved it: header needed to change: no NT sequences ...
written 16 months ago by dfinkels640
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Comment: C: gcpapc package fails at bindWidth step
... Sorry the  last was wrong HERE is the error I'm having:   bindWidth(cov, range = c(50L, 500L), step = 50L, odd = TRUE) Starting to estimate bdwidth. ...... Cycle 1 for bind width estimation Error in seq.default(range[1], range[2], step) :    'from' must be a finite number ...
written 16 months ago by dfinkels640
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gcpapc package fails at bindWidth step
... Hi, I'm trying to test gcapc on my own bam file.  It works fine on the system file.  The command and error are below, any suggestions are welcome: > bindWidth(coverage, range = c(50L, 500L), step = 50L, odd = TRUE) Starting to estimate bdwidth. Error in bindWidth(coverage, range = c(50L, 500L) ...
bioconductor gcapc written 16 months ago by dfinkels640

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