User: sorjuelal

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sorjuelal0
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Posts by sorjuelal

<prev • 6 results • page 1 of 1 • next >
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Comment: C: dmrseq error: promise already under evaluation??
... Hi, thanks for answering! So `BiocManager::valid()` is TRUE, and dmrseq version is 1.4.5. I was making a subset for you with 2 chromosomes, and tested it and worked (???). Now that I'm testing the full first two chromosomes, it complains again. I will send you this last one by email (if it's not t ...
written 4 months ago by sorjuelal0
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dmrseq error: promise already under evaluation??
... Hi, I keep getting this error when calling `DMRs <- dmrseq(bs=bs, testCovariate="group", cutoff = 0.05, BPPARAM = MulticoreParam(1))` After running through chr1 and chr2, it suddenly causes: `Error in asin.gls.cov(ix = ind[Index], design = design, coeff = coeff) :promise already under evaluat ...
methylation dmrseq written 4 months ago by sorjuelal0 • updated 4 months ago by keegan60
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Comment: C: A problem with csaw that I don't think is a problem with csaw
... yes sorry, I messed up. I'll put it as an answer ...
written 10 months ago by sorjuelal0
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Answer: A: A problem with csaw that I don't think is a problem with csaw
... The first half: > pe.bam <- system.file("exdata", "pet.bam", package = "csaw") > pe.param <- readParam(max.frag=400, pe="both") > demo <- windowCounts(pe.bam, ext=250, param=pe.param) ==46718== Invalid read of size 4 ==46718== at 0x42A52870: bam_cigar2rlen (sam.c:331) ==46718== ...
written 10 months ago by sorjuelal0
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A problem with csaw that I don't think is a problem with csaw
... Hello, I updated to R 3.5.1 on an ubuntu 16.04.5 LTS machine. I am using bioconductor 3.8 packages. Once I run windowCounts() from csaw I get a *** caught segfault *** address 0x7, cause 'memory not mapped'. Here is example code using a bam file from the csaw package: > library(csaw) > pe. ...
csaw caught segfault written 10 months ago by sorjuelal0
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annotatr: CpG Island/Shore/Shelf IDs
... Hi, I was wondering if there's a straightforward way of finding the ID of the CpG Island from a particular Shore/Shelf ID. Since the ID of the shore is different from that of its corresponding island. I figured the numbering is something like: shores shore:1 and shore:2, belong to island:1, and fo ...
annotatr written 11 months ago by sorjuelal0 • updated 11 months ago by rcavalca130

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