Showing : girafe • reset
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biocLite("TxDb.Hsapiens.UCSC.hg19.knownGene") fails
BSgenome hexbin BSgenome IRanges genomeIntervals GenomicRanges girafe Rsamtools HiTC HiTC
updated 11.4 years ago by ★ 8.2k • written 11.4 years ago by ▴ 100
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perWindow chr coordinates (girafe)
Annotation girafe Annotation girafe
updated 12.8 years ago by ▴ 50 • written 12.8 years ago by ▴ 60
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1.5k
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a question about girafe
girafe girafe
updated 13.1 years ago by 21k • written 13.1 years ago by ▴ 80
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980
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strand-specificity for interval_overlap (girafe/genomeIntervals)
girafe girafe
updated 13.3 years ago by ▴ 10 • written 13.3 years ago by ▴ 60
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906
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girafe issues - no interval overlap
Annotation girafe Annotation girafe
updated 13.3 years ago by 16k • written 13.3 years ago by ▴ 60
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1.5k
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gff files: how to tell if right-open interval convention used?
edgeR girafe edgeR girafe
updated 13.3 years ago by 16k • written 13.3 years ago by ▴ 60
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gff files: how to tell if right-open interval convention used?
edgeR girafe edgeR girafe
updated 13.3 years ago by ▴ 90 • written 13.3 years ago by ▴ 60
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894
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get table with aanotaed genome features
Alignment annotate girafe Alignment annotate girafe
updated 14.1 years ago by ▴ 450 • written 14.1 years ago by ▴ 810
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4
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1.3k
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error in function reduce from girafe
Annotation annotate biomaRt IRanges girafe Annotation annotate biomaRt IRanges girafe
updated 14.1 years ago by ▴ 450 • written 14.1 years ago by ▴ 810
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1.1k
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error in installing girafe package
girafe girafe
updated 14.1 years ago by ★ 13k • written 14.1 years ago by ▴ 810
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Comment: 'path' must be string by James W. MacDonald 66k
Yes. We already knew that from the error message, and I told you that in my previous email. The point wasn't to figure out *where* the err…
Comment: 'path' must be string by cpierce2 • 0
I ran the debugger and this is the line that causes the error: ``` if (any(startsWith(pkcData[["RTS_ID"]][1L], "RTS")) & any(startsWith(pr…
Comment: Generating surrogate variables across multiple variables of interest by Robert • 0
Yes, we have several biomarkers, and a proteomic set, so we are characterizing each biomarker by it's proteomic association(s). The use for…
Comment: Error running tximeta by Guido Hooiveld ★ 4.0k
FYI (since I just finalized a run with `salmon`). For each sample (`.`) an output folder is created that contains 3 files (`cmd_info.json`…
Comment: Error running tximeta by Michael Love 42k
Tximeta uses the full directory. There are files that give the key information about the transcriptome. It's not a good idea to selectively…
Votes
Question: Deconvolution Methods on RNA-Seq Data (Mixed cell types)
Answer: Understanding how to contrast two treatments in DESeq2
Answer: Understanding how to contrast two treatments in DESeq2
Cannot extract TxFeatures for a defined GRanges object
Limma time series spline help
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