Results for "blast"

Bio-Scripts

  • Install BLAST in Ubuntu/Linux and Window !

    ...ubuntu sudo apt-get install ncbi-blast+ #Ubuntu Conda installation conda install -c bioconda blast #Windows installation Fir...ownload ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.7.1/ncbi...nstead http://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.7.1/ncbi...

    1109 days ago

  • Blast result parser with Perl and Bioperl

    ...U General Public License. # This script will parse a NCBI blastx output file and output the top N hits of each blast search result. # For each hi...y ($infile,$numHits,$outfile) = @ARGV; print "Parsing the BLAST result ..."; my $in = Bio::S...

    2876 days ago

  • Blast script to index and extract sequence !!

    ...TTAACCAATATAGGCATAGCGCACAGACAGATAAAAATTACAGAGTAC # generate the blast database $ makeblastdb -dbtype nucl -out EC -in EC...TTAGGTCACTAAATACTTTAACCAATATAGGCATAGCGCACAGAC .... # query the blast database by id and coordinate...

    2814 days ago

  • BASH script for SelfBLAST a genome

    #!/bin/bash #self BLAST a genome -- Expecting you have blast and samtools installed in your...itendra Narayan #USAGE: ./selfBlast.sh extract #USAGE: ./selfBl...-f $MYDB.nhr ] then echo "BLAST database for MergedContigs.fa...o "You want entire sequence to blast" SEQ=$FASTAFILE else e...

    2614 days ago

  • Fill up the form and blast with perl

    ...CGGTCTCAGAGATCTCGATATATTATA'; $mech->get('http://www.arabidopsis.org/Blast/'); $mech->submit_form( form_name => 'myForm', fields => { 'Algorithm' => 'blastx', 'BlastTargetSet' => '...

    2287 days ago

  • Installing Busco version 4.0.6

    ...on-1.76 | py37h516909a_0 2.6 MB conda-forge blast-2.2.31 |...opython conda-forge/linux-64::biopython-1.76-py37h516909a_0 blast bioconda/linux-6...

    1415 days ago

  • Installing pb-assembly on Linux !

    ...libxslt/1.1.28-foss-2016a blas/gcc/3.2.1 libXt/1.1.5-foss-2016a BLAST+/2.3.0-foss-2016a-Python-2.7....

    1996 days ago

  • Install blast locally

    Download page https://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=BlastDocs&DOC_TYPE=Do...Ubuntu / Debian sudo apt-get install ncbi-blast+ CentOS # download latest...tp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/ncbi-blast-2.8.1+-x64...

    1724 days ago

  • Install Kraken2 using conda !

    (JitMetaENV) ➜ day2 conda install -c bioconda kraken2 Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solv...

    1177 days ago

  • Set up WGD environment using conda !

    ...are. wgd depends on the following software #BLAST #MCL #MUSCLE/MAFFT/PRANK #...d git:(master) conda create -n wgd python=3.7 blast mcl muscle mafft prank paml...exit. Commands: dmd All-vs.-all diamond blastp + MCL clustering. kde Fi...

    1165 days ago