User: felipead66

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felipead6680
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Posts by felipead66

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Comment: C: RNASeq datasets with different total counts
... You mean remove genes which have, let's say, 0 in dataset1 and non-zero in dataset2 and then filter the genes which have, let's say less than 10 counts across all samples? ...
written 7 days ago by felipead6680
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Comment: C: RNASeq datasets with different total counts
... Thank you for your time. The datasets have the same experimental structure and I want to make a "master dataset" out of these two datasets. My concern is that the two datasets have different number of reads, therefore I wonder if a special normalization is required. ...
written 7 days ago by felipead6680
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RNASeq datasets with different total counts
... I have 2 RNA Seq datasets from mouse data but the total counts of each sample differs between the 2 datasets. The first dataset has an average of ~400 million PF reads, the second has ~550 million PF reads. Can these datasets be combined? What kind of normalization has to be done in order to compa ...
normalization rna seq written 7 days ago by felipead6680 • updated 7 days ago by agata88810
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Implement blast on a database
... I am building a database linked to a webpage and I want to include blast searches. Do I have to use blast API for that? ...
database custom blast written 4 months ago by felipead6680
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Calculate enrichment factor from a list of GO terms
... I have a list of genes and the corresponding GO terms for a non-model organism. Could I calculate enrichment factor from the list of GO terms? ...
enrichment factor R go written 9 months ago by felipead6680
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Comment: A: DeSeq2 error: counts matrix should be numeric, currently it has mode: character
... Write first the command on how you imported the data ...
written 9 months ago by felipead6680
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RNA Seq data distribution
... When I have RNA seq data, analyzed with DESEq2, is it necessary to do violin plots in order to check the distribution and intensities of the libraries? ...
libraries deseq2 rna seq distribution written 9 months ago by felipead6680
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Cannot find a gene in the counts table
... I have human rna-seq data and I use the tophat/samtools/htseq pipeline to produce the count table. My problem is that a particular gene, does not appear in the final count table, although it appears on the .gtf file. What could be the reason for that? Shouldn't all genes in the .gtf file appear in t ...
rna-seq written 10 months ago by felipead6680
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RNA seq library size
... I apologize for the silly question, but how do I find the library size of rna seq data if I have the count table? The count table was created using htseq. Is it just the sum of the counts of genes? ...
rnaseq counts written 13 months ago by felipead6680
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Comment: C: Linkage disequilibrium with one sample
... I thought so. Thank you very much for your answer. ...
written 14 months ago by felipead6680

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