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Forum: Bioinformatics 07-27-2019, 02:15 PM
Replies: 104
Views: 41,706
Posted By GenoMax
Instead of trying to extend the reads use tadpole...

Instead of trying to extend the reads use tadpole in assembly mode. I linked a guide for how to use "tadpole" and its modes in my last comment.

You may have too much coverage for small genomes...
Forum: Bioinformatics 07-27-2019, 07:53 AM
Replies: 104
Views: 41,706
Posted By GenoMax
Is this data in addition to contigs file or are...

Is this data in addition to contigs file or are they reads that were used to make the contig assembly?

Take a look at this tadpole usage guide...
Forum: Bioinformatics 10-14-2017, 05:54 AM
Replies: 104
Views: 41,706
Posted By GenoMax
Appears that tadpole is not able to take SE,PE...

Appears that tadpole is not able to take SE,PE reads at the same time.
Forum: Bioinformatics 10-13-2017, 11:15 AM
Replies: 104
Views: 41,706
Posted By GenoMax
Axolotl genome paper has used SOAPdenovo2.

Axolotl genome paper has used SOAPdenovo2.
Forum: Bioinformatics 10-13-2017, 10:34 AM
Replies: 104
Views: 41,706
Posted By GenoMax
I am not sure if Tadpole is designed to assemble...

I am not sure if Tadpole is designed to assemble a genome of this size. Curious to see what @Brian has to say.

Have you tried other large genome assemblers? ALLPATHS-LG?
Forum: Bioinformatics 03-27-2017, 10:54 AM
Replies: 104
Views: 41,706
Posted By GenoMax
Probably the attachments.

Probably the attachments.
Forum: Bioinformatics 03-26-2017, 04:29 AM
Replies: 104
Views: 41,706
Posted By GenoMax
Your last posts were caught by the moderation...

Your last posts were caught by the moderation filter. I have approved them.
Forum: Bioinformatics 04-18-2016, 06:29 AM
Replies: 104
Views: 41,706
Posted By GenoMax
Provide a number that you want to use e.g....

Provide a number that you want to use e.g. reads=55000000. I don't know if that randomly subsamples though. It may be first 5.5M reads. @Brian will have to clarify.

If you want to independently...
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