User: ta_awwad

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ta_awwad10
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Posts by ta_awwad

<prev • 28 results • page 1 of 3 • next >
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Answer: A: BAM file into R from Illumina
... myBam <-c ("trt_1.bam", "trt_2.bam", "wt_1.bam","wt_2.bam") bamLst <- BamFileList (myBam, yieldSize=2000000) summarizeOverlaps(bamLst,......)   good luck                 ...
written 1 day ago by ta_awwad10
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Comment: C: how can I interpret the fold change of Dseq2
... browseVignettes("DESeq2") ...
written 5 weeks ago by ta_awwad10
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Answer: A: microarray data analysis using limma package
... I think you need  hgu133plus2.db not hgu133aprobe for this array ...
written 4 months ago by ta_awwad10
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QuasR error message
... Hi everybody, I am trying to align my paired end reads in R using QuasR. everything was easy and smooth until the alignment step. I am using the following line for alignment: > proj <- qAlign(sampleFile, genome= genomeFile, splicedAlignment= TRUE, alignmentsDir= "bam", clObj = clObj, paired ...
quasr rna_seq written 4 months ago by ta_awwad10 • updated 4 months ago by Hotz, Hans-Rudolf390
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Comment: C: Gviz ChromHMM colouring for AnnotationTracks
... thanks a ton .. I did it already ..  ...
written 4 months ago by ta_awwad10
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Comment: C: Gviz ChromHMM colouring for AnnotationTracks
... Thanks much Robert ... it worked pretty good now...  TA ...
written 4 months ago by ta_awwad10
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Comment: C: Gviz ChromHMM colouring for AnnotationTracks
... Hi Tiphaine, I already tried chromHMM_RoadMap to generate chromHMM15. there is no coloured features were shown only blue bar. here is my bed file format: chr1 75421401 75421600 TssBiv chr1 75421601 75421800 TssBiv chr1 75421801 75422000 TssBiv chr1 75422001 7542 ...
written 4 months ago by ta_awwad10
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Comment: C: Gviz ChromHMM colouring for AnnotationTracks
... Thanks much Robert, the colours should be automatically specified from itemRgb column ... am I getting this right?   ...
written 4 months ago by ta_awwad10
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Answer: A: Gviz ChromHMM colouring for AnnotationTracks
... Hi Robert, I did the same thing but still not working. y <- import.bed("chromatin_stats.bed") y GRanges object with 13627678 ranges and 4 metadata columns: seqnames ranges strand | name score itemRgb thick <Rle> ...
written 4 months ago by ta_awwad10
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Answer: A: Gviz ChromHMM colouring for AnnotationTracks
... Hi, did you manage to solve this problem ? ...
written 5 months ago by ta_awwad10

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