Re: [wgs-assembler-users] multiple file input for pacBioToCA query

[Serge K. <ser...@gm...>]

Hi,

For the PacBio raw reads you do need to have one fastq file. You can just concatenate all your smrtcell filtered data together or run the filtering on all the SMRTcells at once. For the correction data (Illumina/etc), you can provide an arbitrary number of FRG files which will get used for correction.


On Jul 11, 2014, at 11:12 AM, nic blouin <nb...@ma...> wrote:

> Hi there-
> 
> I looked through the archives and din't see a post regarding this item, which makes me think i am being obtuse here.
> 
> I wish to use pacBioToCa to correct a PacBio data set I have.
> For error correction i can see that i can input  an illumina dataset and off I go. 
> I have quite alot of gDNA data for this organism and would like to use it all thinking that more is beter.
>  From looking over the documentation i believe that I can submit only one correction file is this correct?
> Or is there a way for me to include 4 read sets with different pared/mate distances to correct my PacBio data?
> For example i have a 4 illumina runs with 300 bp, 500 bp, 4kb, and 7 kb inserts respectively.
> 
> Thanks for any advice.
> 
> 
> 
> 
> nic
> 
> 
> Nicolas Achille Blouin, Ph.D.
> Dept. of Biological Sciences
> University of Rhode Island
> 120 Flagg Road, CBLS 260
> Kingston, RI 02881
> 
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