因为是蛋白质比蛋白质,所以program选择blastp。E-vaule可以根据自己的需要来设置,默认是0.001。Threads一般可以不用改,因为Diamond真的很快。输出格式也可以按照自己的需要选择,提供了tabular,pairwise,xml和sam格式。 最后,设置一个输出文件,点start 我们就获得了一个tabular格式的输出 如何将Diamond制作成TBtools插件?
更多参数 makeblastdb -help (2)blast+比对 蛋白序列比对蛋白数据库(blastp) blastp -query seq.fasta -db dbname -out seq.blast -outfmt 6 -evalue 1e-5 -num_alignments 10 -num_descriptions 10 -num_threads 2 blastx -query seq.fasta -out seq.blast -db dbname -outfmt 6 -evalue 1e-5 -n...
qcovus means Query Coverage Per Unique Subject (blastn only) When not provided, the default value is: 'qaccver saccver pident length mismatch gapopen qstart qend sstart send evalue bitscore', which is equivalent to the keyword 'std' Default = `0' 默认是0,也就是会输出比对的结果。 但...
当比较DIAMOND(v2.0.7)与BLASTP(v2.10.0)时,我们发现在使用最低灵敏度模式时,DIAMOND的速度比BLASTP快约8000倍,而在灵敏度水平与BLASTP相当的超灵敏模式下运行时,DIAMOND的速度仍然比BLASTP快80倍。进一步基于ROC曲线(图1b)检查灵敏度与特异性之间的权衡,结果显示DIAMOND(v2.0.7)在非常灵敏和超灵敏模式下,在...
The pipeline identifies orthologous proteins between species using DIAMOND in blastp mode. Please note that the original POCP publication used BLASTP for calculating the alignments. However, DIAMOND is not only faster, which is an advantage when calculating POCP values for larger input data sets, ...
Measurement-while-drilling (MWD) aims at collecting accurate, speedy and high resolution information from the production blast hole drills with a target of... P Rai,H Schunesson,PA Lindqvist,... - 《Journal of the Institution of Engineers》 被引量: 5发表: 2015年 ...
Star Blast: diamond dashXếp hạng và Nhận xét 4,4/5 458 đánh giá
The ultra-high molecular weight polyethylene (UHMWPE) is one of the lightest weight polymeric material used for ballistic and blast protection. But the dif... P Bajpai,A Kumar,A Kumar,... - 《Fibers & Polymers》 被引量: 0发表: 2023年 Direct Formation of Graphene on Semiconductor Substrates...
$ diamond blastp \--db nr_eukaryon_20190405 \--query proteins.fasta \--out nr.tab \--outfmt6\--sensitive \--max-target-seqs20\--evalue1e-5\--id30\--block-size20.0\--tmpdir/dev/shm \--index-chunks1 此外,DIAMOND还包含其它几个子命令: ...
$ diamond blastx --db nr_eukaryon_20190405 --query reads.fq.gz --out reads.tab 将全基因组蛋白序列比对到数据库: $ diamond blastp --db nr_eukaryon_20190405 --query proteins.fasta --out nr.tab --outfmt 6 --sensitive --max-target-seqs 20 --evalue 1e-5 --id 30 --block-size 20....