Limiting the alignment length when using localalign
2 visualizzazioni (ultimi 30 giorni)
Mostra commenti meno recenti
Hey guys! I'm trying to use 'localalign' to align two bacterial genomes and find all common hits between them. The problem is that I need to limit each hit to 20 bp or less which is why I'm not using 'nwalign' or 'multialign'. Does anyone have any recommendations on how to limit the size of the output instead of having the function return several hundred basepair alignments? Thank you in advance.
0 Commenti
Risposte (1)
Shresth Sharma
il 20 Mar 2020
Hi,
It is my understanding that you are trying to use ‘localalign’ function to align two different data sets and you are having difficulty with the way the result is presented as you need some formatting to continue your work. The ’localalign’ function can still be used with a property, so that the data is below a certain limit required as follows:
AlignStruct = localalign(Seq1, Seq2, ...'MinScore', MinScoreValue, ...)
AlignStruct = localalign(Seq1, Seq2, ...'NumAln', NumAlnValue, ...)
These commands will help you align your data accordingly as required. For more information on the ‘localalign’ you can go through the documentation link:
Vedere anche
Categorie
Scopri di più su Genomics and Next Generation Sequencing in Help Center e File Exchange
Community Treasure Hunt
Find the treasures in MATLAB Central and discover how the community can help you!
Start Hunting!