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Gene Set Enrichment Analysis
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Comment: Ciriquant not configuring hisat2 indexed files
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Atul K.
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it worked. Thank you. Now my terminal is crashing, seems 16gb of RAM and 4 cores isn't enough. Can you suggest something?
Comment: Adding CB tag to bam file
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Maria
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I checked Picard ```AddOrReplaceReadsGroups``` and ```AddOATag```. Is that what you're referring to?
Comment: Free/open source 23andme-like analysis
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Michael
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Noted that 'accurate' wasn't among your criteria ;)
Anyway, most variant callers are free open-source software. However, for ancestry ana…
Answer: Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (wi
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Pierre Lindenbaum
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> server so I cannot use Blat for this purpose.
blat is avilable as a standane tool: http://hgdownload.soe.ucsc.edu/admin/exe/linux.x86…
Answer: Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (wi
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b.contreras.moreira
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My favourite for this task would be [GMAP]( http://research-pub.gene.com/gmap ), which can produce GFF format with option `-f 2`.
It is…
Answer: Prediction of Ribosomal RNA Genes Using RNAmmer Software
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colindaven
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Another alternative is the truly free implementation barrnap https://github.com/tseemann/barrnap. This is also installable via conda so qui…
Comment: Filtration Of Reads With Length Lower Than 30 From Bam
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Hagen
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thanks! This saved me quite some time, I was about to write code to calculate the aligned length from the CIGAR. But this can be done with
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Kai Xin
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will look into that. Thank you very much
Comment: Korean human genome reference file
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SeoGyun
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Thanks..... But I want to do imputation, so I have to make it as a vcf file, but the site only has a fatsa file....
Comment: miRNAs quantification using mirdeep2 tool
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Ashok
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thank you for your reply
https://github.com/rajewsky-lab/mirdeep2/blob/master/TUTORIAL.md
i saw this github tutorial for miRNA quantifica…
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Hi there, I let a developer know of this thread and they said they can check it out next week. Feel free to post to the https://github.com/…
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joe
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I'd try those OP @samuel recommends
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swbarnes2
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No. Find a tutorial, try it, then if you have specific questions, ask of the galaxy help site.
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