User: memoly101

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memoly1010
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Posts by memoly101

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Comment: C: genomicFeature---paired end read::reads from the same pair were found not adjace
... Yeah, that's why I was surprised! I reinstalled the package and it worked. Thanks, Memol ...
written 7 months ago by memoly1010
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genomicFeature---paired end read::reads from the same pair were found not adjacent to each
... Hi , For the following : > fCountsList = featureCounts(props, annot.ext="/patho/to/gtf/GRCh38.gtf", isGTFA nnotationFile=TRUE, nthreads=16, isPairedEnd=TRUE, allowMultiOverlap=TRUE, fraction=FALSE) my job is killed by the following : WARNING: reads from the same pair were found ...
normalization written 7 months ago by memoly1010 • updated 7 months ago by Martin Morgan ♦♦ 23k
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Comment: C: Rsubread- feature counts
... Thank you so much! I should have checked it. ...
written 8 months ago by memoly1010
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Comment: C: Rsubread- feature counts
... Thank you so much Martin Morgan! ...
written 8 months ago by memoly1010
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Comment: C: Rsubread- feature counts
... Thank you so much! I'll have the code and error in the same box for future. ...
written 8 months ago by memoly1010
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Comment: C: Rsubread- feature counts
... Oh, I had actually provided the file name when you mentioned it, but it seems I forgot to include it in this post so basically, I have the following: > bamdir <- ("/path/bam_files/") > bamfiles <- dir(bamdir, pattern = "bam$") > fls <- propmapped(file.path(bamdir,bamf ...
written 8 months ago by memoly1010 • updated 8 months ago by Gordon Smyth38k
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Comment: C: Rsubread- feature counts
... Thank you, I'm so sorry about that, which part specifically I need to format correctly. (I'm sorry I'm new to this matter). ...
written 8 months ago by memoly1010
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Comment: C: Rsubread- feature counts
... Dear Wei Shi, Thanks a lot! I updated to Rsubread 3.8, that one error is solved but I have again the path error : > bamdir <- ("/path/bam_files") > bamfiles <- dir(bamdir, pattern = "bam$") > fls <- propmapped(file.path(bamdir,bamfiles)) > featureCounts(fls, ...
written 8 months ago by memoly1010 • updated 8 months ago by Gordon Smyth38k
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Rsubread- feature counts
... Hello everyone, I am trying to get ncRNA from my bam files so I'm using feature counts from Rsubread and I have the following ERRORs after running: > featureCounts(BAMfiles, annot.ext="//path/to/gff/", isGTFAnnotationFile=TRUE, nthreads=16, isPairedend=TRUE, allowMultiOverlap=TRUE, ...
annotation rsubread featurecounts written 8 months ago by memoly1010 • updated 8 months ago by Gordon Smyth38k
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Comment: C: Featurecount -- normalized Path error
... Thank you Gordon Smyth! I am going to try this. I really appreciate it! ...
written 9 months ago by memoly1010

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