User: Seigfried

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Seigfried40
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Posts by Seigfried

<prev • 31 results • page 1 of 4 • next >
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Comment: C: Complex Heatmap subscripts
... Thank you and apologies! I got it to work in case i wanted multiple words in the subscript list(title = expression(log[hello~world]~Normalised~Values)) So I guess as usual [ ] denotes the start-end of the subscript. But I do not know why the tilde (~) is a substitute for a space [https://stackove ...
written 11 weeks ago by Seigfried40
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Comment: C: Complex Heatmap subscripts
... Well, for me it works with column_title and not with name. name = expression(log[2]~score), column_title = expression(log[2]~score), ...
written 11 weeks ago by Seigfried40
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Complex Heatmap subscripts
... Hello all I love the package 'Complex Heatmaps' to draw heatmaps in R and I quit using Heatmap.2. However in heatmap.2, I could use something like expression(paste) to get some words as subscripts. main = expression(paste("Log[2]","(FPKM) Values")) Unfortunately, expression doesn't seem to w ...
complex heatmap subscript written 11 weeks ago by Seigfried40
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Comment: C: Finding zebrafish promoters ENSEMBL
... Hello Ben Thank you very much for your detailed response! ...
written 11 weeks ago by Seigfried40
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Comment: C: is there any online tool to know which transcription factors ( TFs) bind to the
... Nice comprehensive post! ...
written 12 weeks ago by Seigfried40
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Comment: C: Finding zebrafish promoters ENSEMBL
... Hello Ben Thank you for your reply i tried BioMart before but I couldn't find the way to select sequences upstream 2kb from TSS. From your post this specific point : 'choose the required upstream sequence length as the Attribute.' Where can I find this specific option? As a trial run I set the ...
written 12 weeks ago by Seigfried40
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Comment: C: Finding zebrafish promoters ENSEMBL
... Yes but I have to do this for 2000 genes so I cannot do it manually. Thank you for the paper. ...
written 12 weeks ago by Seigfried40
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Finding zebrafish promoters ENSEMBL
... Hello I have a list of ENSEMBL zebrafish genes whose promoters I want to extract and they are way too many to manually do it. I was reading this post here https://www.biostars.org/p/136548/ where @Emily_Ensembl showed how to extract human gene promoters. I understand that maybe there is no data ye ...
ensembl promoter written 12 weeks ago by Seigfried40 • updated 12 weeks ago by Ben_Ensembl600
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Answer: A: Bowtie2 aligner not generating .sam file.
... The difference between -S and -s -s/--skip Skip (i.e. do not align) the first reads or pairs in the input. -S File to write SAM alignments to. By default, alignments are written to the "standard out" or "stdout" filehandle (i.e. the console). ...
written 5 months ago by Seigfried40
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Comment: C: R merge columns in the same file with identical column names and remove duplicat
... Thank you for the reply In my case my terms were basically GO terms which I wanted to reduce (1->3)-beta-D-glucan metabolic process (1->3)-beta-D-glucan metabolic process acetyl-CoA metabolic process fksA fksA AN3817 rhoA rhoA AN3869 sunA sunA AN4923 gelA ...
written 5 months ago by Seigfried40

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Popular Question 9 months ago, created a question with more than 1,000 views. For ChIP-Seq TSS Line Plot

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