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I used ./diamond makedb --in margin_seq.fasta -d margin_seq to build the Database.
./diamond makedb --in margin_seq.fasta -d margin_seq
Database report as follows:
diamond v2.1.9.163 (C) Max Planck Society for the Advancement of Science, Benjamin Buchfink, University of Tuebingen Documentation, support and updates available at http://www.diamondsearch.org Please cite: http://dx.doi.org/10.1038/s41592-021-01101-x Nature Methods (2021) #CPU threads: 128 Scoring parameters: (Matrix=BLOSUM62 Lambda=0.267 K=0.041 Penalties=11/1) Database input file: margin_seq.fasta Opening the database file... [0s] Loading sequences... [0s] Masking sequences... [0.007s] Writing sequences... [0s] Hashing sequences... [0s] Loading sequences... [0s] Writing trailer... [0s] Closing the input file... [0s] Closing the database file... [0s] Database sequences 2 Database letters 1547 Database hash b401acfc064057d03ec56f2e0cd4daa3 Total time 0.008000s
And then, ./diamond blastp -d margin_seq -q margin_seq.fasta -o margin_seq_diamond.csv -f 6 qseqid sseqid qlen slen pident length mismatch gapopen qstart qend sstart send evalue bitscore -p 108 --id 99 --query-cover 99 --ultra-sensitive -e 1e-5 was used to blastp. And report as follows:
./diamond blastp -d margin_seq -q margin_seq.fasta -o margin_seq_diamond.csv -f 6 qseqid sseqid qlen slen pident length mismatch gapopen qstart qend sstart send evalue bitscore -p 108 --id 99 --query-cover 99 --ultra-sensitive -e 1e-5
Reported 0 pairwise alignments, 0 HSPs. 0 queries aligned.
The sequences file was supported as follows:. Github doesn't accept FASTA files and I supported the txt file instead. margin_seq.txt
The text was updated successfully, but these errors were encountered:
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I used
./diamond makedb --in margin_seq.fasta -d margin_seq
to build the Database.Database report as follows:
And then,
./diamond blastp -d margin_seq -q margin_seq.fasta -o margin_seq_diamond.csv -f 6 qseqid sseqid qlen slen pident length mismatch gapopen qstart qend sstart send evalue bitscore -p 108 --id 99 --query-cover 99 --ultra-sensitive -e 1e-5
was used to blastp. And report as follows:The sequences file was supported as follows:. Github doesn't accept FASTA files and I supported the txt file instead.
margin_seq.txt
The text was updated successfully, but these errors were encountered: