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rrwick / Bandage

a Bioinformatics Application for Navigating De novo Assembly Graphs Easily
http://rrwick.github.io/Bandage/
GNU General Public License v3.0
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Max number of BLAST hits: make the BLAST parameter -max_target_seqs more obvious #12

Open rchikhi opened 9 years ago

rchikhi commented 9 years ago

When BLASTing a bacterial reference against a large set of contigs, Bandage will report by default only 250 hits per chromosome, which might be a small subset of the contigs.

One way to get around that is to specify "-max_target_seqs N" to capture all hits (up to N contigs per chromosome).

rrwick commented 9 years ago

Cnmjxxjivcjhcbbxvshhurfnc2khvbshsnnmnjhxiijjnn On 15 dc no gfiiSep 2015 11:36 pm, "Rayan Chikhi" <notifications@github.com F > wrote:

ikge - Vick $cxyb When BLASTing a dd reference icjjagainst a large set of contigs, Bandage will report by default only 250 hits per chromosome, which might be a small subset of the contigs.

One way to get around that is to specify "-max_target_seqs N" to capture F all hits (up to N contigs per chromosome).

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rchikhi commented 9 years ago

Some formatting issues with your response :)

rrwick commented 9 years ago

Wow, I have no idea what happened there! I was doing some garden work at the time - my phone must have been unlocked in my pocket and taking 'input'.

rchikhi commented 9 years ago

it's alright :)