Trinity assembly parameters

sr320 / paper-pano-go

Draft manuscript describing Panopea gonad transcriptome

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Trinity assembly parameters #13

Closed mdelrio1 closed 8 years ago

mdelrio1 commented 8 years ago

@sr320 Hi Steven, I couldn't find the Trinity parameters, in order to place them in the manuscript. Could you please tell me where they are. thanks

sr320 commented 8 years ago

The code was as follows

Trinity.pl
--seqType fq
--JM 24G
--left /Volumes/web/cnidarian/Geo_Pool_F_GGCTAC_L006_R1_001_val_1.fq /Volumes/web/cnidarian/Geo_Pool_M_CTTGTA_L006_R1_001_val_1.fq
--right /Volumes/web/cnidarian/Geo_Pool_F_GGCTAC_L006_R2_001_val_2.fq /Volumes/web/cnidarian/Geo_Pool_M_CTTGTA_L006_R2_001_val_2.fq
--CPU 16

There are no special parameters - just memory and CPU allocation, maybe could just say default parameters?

mdelrio1 commented 8 years ago

Excellent, thanks, yes, we'll add the default parameters.

mdelrio1 commented 8 years ago

should we close this issue?

sr320 commented 8 years ago

Yes