mirror of https://github.com/CrimsonTome/tldr.git
29 lines
1.1 KiB
Markdown
29 lines
1.1 KiB
Markdown
# blastp
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> Protein-Protein BLAST.
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> More information: <https://www.ncbi.nlm.nih.gov/books/NBK279684/table/appendices.T.blastp_application_options/>.
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- Align two or more sequences using blastp, with the e-value threshold of 1e-9, pairwise output format, output to screen:
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`blastp -query {{query.fa}} -subject {{subject.fa}} -evalue {{1e-9}}`
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- Align two or more sequences using blastp-fast:
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`blastp -task blastp-fast -query {{query.fa}} -subject {{subject.fa}}`
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- Align two or more sequences, custom tabular output format, output to file:
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`blastp -query {{query.fa}} -subject {{subject.fa}} -outfmt '{{6 qseqid qlen qstart qend sseqid slen sstart send bitscore evalue pident}}' -out {{output.tsv}}`
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- Search protein databases using a protein query, 16 threads to use in the BLAST search, with a maximum number of 10 aligned sequences to keep:
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`blastp -query {{query.fa}} -db {{blast_database_name}} -num_threads {{16}} -max_target_seqs {{10}}`
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- Search the remote non-redundant protein database using a protein query:
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`blastp -query {{query.fa}} -db {{nr}} -remote`
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- Display help (use `-help` for detailed help):
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`blastp -h`
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