User: eroljb

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eroljb0
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Posts by eroljb

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PSSM format for command-line PSIBLAST
... I am trying to run PSI-BLAST from the command line, but keep getting the following error: BLAST query/options error: Unsupported format for PSSM I am getting the PSSM by downloading it from this page: https://www.ncbi.nlm.nih.gov/Class/Structure/pssm/pssm_viewer.cgi?mode=Position&cd=cd00209. ...
pssm psiblast blast written 27 days ago by eroljb0 • updated 22 days ago by fishgolden360
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Answer: A: PICRUSt mapping file
... I know I am answering my own question, but this may be helpful for others. PICRUSt provides a set of precomputed files at https://picrust.github.io/picrust/picrust_precalculated_files.html. The KO file on this page is indexed by GreenGenes IDs, so it does not seem that any mapping is needed. ...
written 7 months ago by eroljb0
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Comment: C: PICRUSt mapping file
... I am actually working on genome prediction (described in the previous tutorial). ...
written 7 months ago by eroljb0
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PICRUSt mapping file
... I am working with PICRUSt and I need a file mapping GreenGenes 13.8 OTUs (97% clustering) to IMG IDs. I know that PICRUSt provides a file in its tutorial, but this does not seem to be the correct version. Is there a way to find or generate these mapping files? ...
metagenomics picrust written 7 months ago by eroljb0

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