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  • Understanding BLASTn output format 6 !

    BLASTn output format 6 BLASTn maps DNA against DNA, for example g...sequences against a reference genomeblastn  -query genes.ffn  -subject genome.fna  -outfmt 6 BLASTn tabular output format 6 Colu...Common Name(s), separated by a ';'sblastnames Subject Blast Name(s), se...

    2102 days ago

  • Frequent parameters for bioinformatics tools !

    ...Prokka --usegenus --force --addgenes --rfam --rawproduct   cmsearch (taxonomy, 16S) --rfam --noali   blastn (taxonomy, 16S) -evalue 1E-10   blastn (MLST) -ungapped -dust...

    1249 days ago

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  • Understanding MegaBlast https://gordonlab.wustl.edu/btheta/blast/docs/megablast_readme.html #Blast #BLASTn #MegaBlast #Alignment

    2584 days ago

  • #Target 4 and #HSPS 1 with #blast $ blastn -task megablast -query brkSeq.fa -db myDBAvaga -evalue 1e-5 -num_threads 1 -max_target_seqs 4 -max_hsps 1 -outfmt '6' -out output

    2507 days ago

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  • Need help in Blastn?

    I am doing megablast of a contig against NR database, but unable to understand this -outfmt '6 qseqid staxids qstart qend sstart send qseq sseq evalue length' Can you please help me to undestand all these.

    Tags: Blastn, BLAST, Nucleotide, Alignment, Database, NR, Contig, NGS

    2839 days ago

  • RepeatMasker compatible blast tool

    RMBlast is a RepeatMasker compatible version of the standard NCBI blastn program. The primary difference between this distribution and the NCBI distribution is the addition of a new program "rmblastn" for use with RepeatMasker and RepeatModeler. RMBlast supports RepeatMasker searches by adding a...

    Tags: RMBlast, Repeat, Maskers, Blastn, blast, Download

    1939 days ago

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