User: T_18

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T_1820
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Posts by T_18

<prev • 25 results • page 1 of 3 • next >
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Comment: C: Puzzled by GOseq analyses
... Yes, it's RNAseq data. I'm currently home, but will provide the code when I'll be in the office tomorrow. Thanks so far. ...
written 5 weeks ago by T_1820
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Puzzled by GOseq analyses
... Dear all, I am currently trying to run a GO enrichment analysis using GOseq but I am slightly puzzled if I am doing things correctly given my (zero) output. My endgoal is to get results I can use in GOgadget. I have the following files: - Factor labels (either differently expressed or not, so two ...
R gogadget goseq written 5 weeks ago by T_1820
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Comment: C: Binning GO terms into broader (more usefull) GO terms
... This seems indeed exactly what I was looking for! I'm currently following the analysis steps, but I am stuck. (That is not part of this question so do not want to put that here). ...
written 5 weeks ago by T_1820
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Comment: A: Binning GO terms into broader (more usefull) GO terms
... Thanks for your reply. To be precise about my goal: I have a list of 2500 differentially expressed annotated transcripts with GO terms. I think it is very usefull to split these 2500 genes into smaller chunks according to 'function' based on the GO terms. These can be relatively big like, developmen ...
written 5 weeks ago by T_1820
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Binning GO terms into broader (more usefull) GO terms
... Dear all, For quit some hours I have been looking for a way to bin a list of GO terms into broader, more functional, (GO term groups). More specific: I have a list of 100s of GO terms with quit specific information and I want to bin/group them into useful groups like: "development" and "metabolitio ...
go written 5 weeks ago by T_1820 • updated 5 weeks ago by b.nota4.9k
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(Closed) Removing text after pattern using sed
... Dear all, I am just new in the world of sed.. Simple question, but struggling now for quit a while with this: I have a list of gene names: CYP6k1 CYP4L15 CYP354A5 CYP4d8 CYP354A5 CYP354A14 CYP4c1 CYP354A5 CYP4V2 CYP354A5 I only want to keep "CYP" and the n ...
sed unix written 6 weeks ago by T_1820 • updated 6 weeks ago by genomax55k
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(Closed) export PATH= fails...!
... Dear all, To run the program MCSC I need to add the diamond binary file into my executable search path. The path to the program is "/media/biosys5/bigDisk/Users/Programs/diamond" So I tried: export PATH=$PATH:/media/biosys5/bigDisk/Users/Programs/diamond also: export PATH=/media/biosys5/bigDisk/ ...
command line mcsc diamond unix written 11 weeks ago by T_1820
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Comment: C: Python script to remove sequences from a fasta file
... I used the fix of goodez. Although reading the script of finswimmer must solve the issue also (but did not test). ...
written 12 weeks ago by T_1820
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Comment: C: Python script to remove sequences from a fasta file
... Done, thanks.. Never did this before. ...
written 12 weeks ago by T_1820
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Comment: A: Python script to remove sequences from a fasta file
... Thanks, all. This indeed solved the issue and it is running fine now! And why using script, it's fun to get it running! ...
written 12 weeks ago by T_1820

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