User: scheitelt

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scheitelt10
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Posts by scheitelt

<prev • 11 results • page 1 of 2 • next >
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Comment: C: annovar with worm data
... thanks Pierre, yes this is the (an?) error, but the suggested solution doesn't work. I have tried several different solutions, but couldn't make it run. ...
written 3 months ago by scheitelt10
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annovar with worm data
... Hi, has anybody worked with `annovar` in the past with worm (*Saccharomyces cerevisiae*)? I'm trying to annotate my vcf files but keep getting into trouble, first downloading any kind of data base, then downloading sequences. **I think this is one of the worst documented tools ever.** Can anyone ...
annovar worm variant_detection saccer3 written 3 months ago by scheitelt10
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Comment: C: Coverage plot of a complete genome
... yes, This is true, but it doesn't really answer the question. The question was how this plot was done. can some please help me too? ...
written 3 months ago by scheitelt10
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DE analysis of multiple time points and conditions
... Hi, we have a data set consisting of 48 samples in total. we have 4 time points (0,1,2,3), a control group (which has triplicates for each of the four time points) as well as three different conditions. metadata <- structure(list(condtion = structure(c(4L, 4L, 4L, 4L, 4L, 4L, 4L, 4 ...
nested esign design matrix interaction edger written 2.1 years ago by scheitelt10
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Comment: C: Splitting RNA-Seq data set on two (three) flow cells
... yes thanks. I'll try it. ...
written 2.3 years ago by scheitelt10
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Comment: C: Splitting RNA-Seq data set on two (three) flow cells
... This is exactly my question. Can I use the nextseq 500 with enough unique primers/barcodes for 48 samples? which kit would it than be? ...
written 2.3 years ago by scheitelt10
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Comment: C: Splitting RNA-Seq data set on two (three) flow cells
... Can you have 48 barcodes in one flow cell run on a nextseq 500? ...
written 2.3 years ago by scheitelt10
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Splitting RNA-Seq data set on two (three) flow cells
... Hallo we have an RNA-Seq experiment and I would like to ask for your suggestion about how to best sequence the samples We are working on mammalian cell lines (human or mouse) and would like to sequence samples for a time-series analysis we have four conditions and four time-points each in triplica ...
nextseq rna-seq flow-cell sequencing written 2.3 years ago by scheitelt10
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Comment: C: General Question to shRNA-Seq analysis
... But does it also works fine with shRNA-Seq? it is a small number of genes analysed and the number of changed (differentially expressed) genes might be higher than what DESeq2 assume to begin with. ...
written 2.3 years ago by scheitelt10
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Comment: C: General Question to shRNA-Seq analysis
... > May I know, You want to compare conditions or have a control to compare with? This is the point - I'm not sure which samples to take. The end goal is to identify genes which show a dropout in the comparison MUT vs. WT. But do I need to take all four sample groups or a comparison of the two exp ...
written 2.3 years ago by scheitelt10

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Popular Question 7 months ago, created a question with more than 1,000 views. For Splitting RNA-Seq data set on two (three) flow cells

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