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Recent Replies
Answer: Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (wi
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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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Another alternative is the truly free implementation barrnap https://github.com/tseemann/barrnap. This is also installable via conda so qui…
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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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will look into that. Thank you very much
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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....
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thank you for your reply
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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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I'd try those OP @samuel recommends
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No. Find a tutorial, try it, then if you have specific questions, ask of the galaxy help site.
Comment: Downloaded pdb's on rcsb.org
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Sure. Or, one could do:
bash try.bash "Homo sapiens" AHR | xargs -I v_pdb curl -s -o v_pdb.pdb https://files.rcsb.org/view/v_pdb.pdb
Comment: Downloaded pdb's on rcsb.org
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GenoMax
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This may be the best option.
Get the PDB ID's
$ ./get.sh "Mus musculus" AHR
4M4X
5NJ8
5V0L
8H77
Then use `curl` to g…
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