Hey all! First time poster here.
I am blasting 122,000 transcripts against the NCBI NR database (using NCBI-blast 2.6.0). Have downloaded the database and formatted it and am using the following command
/blastx -query ***.fasta -db nr -outfmt "6 qseqid sseqid salltitles pident length slen mismatch gapopen qstart qend sstart send evalue bitscore" -num_alignments 1 -max_hsps 1 -num_threads 18 -out ***.txt
now the issue i'm having is that each set of 16 transcripts are taking about 10min to blast before the next 16 begin, meaning at the rate i'm going i'll be blasting for 60 days before I have this complete. Is there anything I can do to speed this process up? Or have I done something incorrectly? Or is this just the normal speed and process? (I'm running on a cluster with 20 cores and 120gb RAM)
Thanks
I am blasting 122,000 transcripts against the NCBI NR database (using NCBI-blast 2.6.0). Have downloaded the database and formatted it and am using the following command
/blastx -query ***.fasta -db nr -outfmt "6 qseqid sseqid salltitles pident length slen mismatch gapopen qstart qend sstart send evalue bitscore" -num_alignments 1 -max_hsps 1 -num_threads 18 -out ***.txt
now the issue i'm having is that each set of 16 transcripts are taking about 10min to blast before the next 16 begin, meaning at the rate i'm going i'll be blasting for 60 days before I have this complete. Is there anything I can do to speed this process up? Or have I done something incorrectly? Or is this just the normal speed and process? (I'm running on a cluster with 20 cores and 120gb RAM)
Thanks
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