Pacbio assembler for mid genome ?
0
1
Entering edit mode
8.7 years ago
Picasa ▴ 650

Hello,

Does HGAP is efficient for assembling Pacbio reads of an estimate genome size of 700 MB ?

Where can I find benchmark test for pac bio assembler, such as how much memory required for a pac bio de novo assembly etc. ??

cpu ram • 2.0k views
ADD COMMENT
2
Entering edit mode

Here is a link for wiki from PacBio for this topic.
You would want to consider this recommendation from PacBio.

We recommend PacBio-only de novo assembly when it is possible to get at least 50X PacBio coverage.

Recently gorilla genome was assembled using PacBio reads, so in theory it is possible to do much larger genomes (provided you have enough coverage).

ADD REPLY
1
Entering edit mode

Do you have any clue about how much RAM we need for this kinkd of assembly ?

ADD REPLY

Login before adding your answer.

Traffic: 2495 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6