User: cpsosa0006

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cpsosa00060
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USA/Rochester/University of Minnesota Rochester
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Posts by cpsosa0006

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Comment: C: DEXSeq: Error in FUN(X[[i]], ...) : subscript out of bounds
... OK. I sent you an e-mail (location of the folder) and the folder is shared.  Please let me know if you do NOT get my e-mail. ...
written 6 months ago by cpsosa00060
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Comment: C: DEXSeq: Error in FUN(X[[i]], ...) : subscript out of bounds
... Great.  I'll do it right. ...
written 6 months ago by cpsosa00060
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Answer: A: DEXSeq: Error in FUN(X[[i]], ...) : subscript out of bounds
... Hi Alejandro, I have uploaded the files in dropbox.  I'll need your e-mail address to share that folder with you. This is the command I used to create the sampleTable. sampleTable = data.frame(   row.names = c(  "ME26501", "ME26502", "ME26503", "ME26504", "ME26505", "ME26506", "ME26507", "ME26508 ...
written 6 months ago by cpsosa00060
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Answer: A: DEXSeq: Error in FUN(X[[i]], ...) : subscript out of bounds
... How can I make files available?  Is there an ftp location where I can put the files?  I believe that I can ftp but I need to check with firewall restrictions. ...
written 6 months ago by cpsosa00060
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Answer: A: DEXSeq: Error in FUN(X[[i]], ...) : subscript out of bounds
... All the count files have exactly the same number of lines as reported by "wc -l"  A total of 66028. This is the command I used to create the gff file: python /data5/bsi/adhoc/s200555.R-infrastructure/install/R-3.2.3/new/DEXSeq/python_scripts/dexseq_prepare_annotation.py genes.gtf genes.gff I did ...
written 6 months ago by cpsosa00060
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Answer: A: DEXSeq: Error in FUN(X[[i]], ...) : subscript out of bounds
... Hi Alejandro, I'll proceed to check that.  I'll let you know.  Thanks ...
written 6 months ago by cpsosa00060
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Answer: A: DEXSeq: Error in FUN(X[[i]], ...) : subscript out of bounds
... I flattened the GTF file via that py script as specified in that paper.  I used the same flattened file when running HTSeq. This is from the paper: python /path/to/library/DEXSeq/python_scripts/dexseq_count.py Dmel.BDGP5.25.62.DEXSeq.chr.gff untreated1.sam untreated1fb.txt ...
written 6 months ago by cpsosa00060
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DEXSeq: Error in FUN(X[[i]], ...) : subscript out of bounds
... Hello, I am trying to use DEXSeq for the first time and I am encountering this error. I am closely following this paper: "Inferring differential exon usage in RNA-Seq data with the DEXSeq package " I am using my own data. The files correspond to: countFiles = 37 samples with counts generate ...
dexseq written 6 months ago by cpsosa00060

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