Hi, I getting this below error under SC2 ovarian express lane. predictions.tsv: All proteinID in the goldstandard must also be in your file. You are missing: ELANE,AGK,NCBP2,NCBP3,NELFB,HSPA9,NELFA,NELFE,ATRX,ASS1,TOMM70,GPR180,RAP1GAP2,PPP4C,RMND5A,RNF114,ZC3H15,ZC3H14,ABCD1,ZC3H18,SCLY,ZSWIM8,C2CD2,DIMT1,OSGEP,NSRP1,C2CD5,GOLIM4,GK,TRAPPC9,PTRH2,PTRH1,HNRNPDL,ORM2,HEATR3,MAZ,TRAPPC5,ERI3,KTI12,ERI1,PKM,NOP9,HACL1,PNISR,NOP2,EDC3,DENND4A,EDC4,DENND4C,UFSP2 And many more proteinID's PS - I have selected the common rows between rna and cna in my R script, will these need to be changed to something else. because If I don't select common rows, it throws me another error saying "rows miss match between datasets(rna,cna)" Any suggestion is highly appreciated, Thanks in advance. Regards, Vijay N

Created by vijay kumar narsapuram narsapvi
Thanks Yuanfang Guan.
you need to predict with the genes within the proteomics file for sub2 in the filtered directory: https://www.synapse.org/#!Synapse:syn10139526   if the gene does not have rna, cna, you still need to make a prediction. It can be all zero, for example, but you have to predict something.  

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