[maker-devel] mRNA-seq data

[Sivaranjani Namasivayam]

Hi,



I am using to MAKER to annotate a genome and I would like a couple of clarifications.



In the previous version of MAKER, under EST_evidence in maker_opts. ctl the user could input est and est_reads- the mRNAseq reads (although this was not fully implemented).

The latest version of MAKER uses mRNA-seq data to improve annotation quality.

I have assembled transcriptome data from Sanger,454 and Illumina



Do I just provide all this data in a fasta file format to the 'est' option? Is this is the best way to provide the mRNA-seq evidence?Will this assure the mRNA-seq data is used to improve the annotations?



Thanks!



Ranjani
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