easyrun error:

[asmo2a]

I can't seem to find a way to fix this error when running the easyrun package

Calculate RPKMs and Output proteins pass the cutoff into FASTA file ... Error in keepSeqlevels(anno, seqlevels(galn), pruning.mode = "coarse") :
invalid seqlevels: NC_004354.4, NW_001845990.1, NW_001846257.1,
NW_001845957.1, NW_001845953.1, NW_001845561.1, NW_001846366.1,
NW_001845373.1, NW_001845450.1, NW_001845573.1, NW_001845748.1,
NW_001846054.1, NW_001845911.1, NW_001845815.1, NW_001847283.1,
NW_001846524.1, NW_001846034.1, NW_001845796.1, NW_001845363.1,
NW_001846907.1, NW_001847086.1, NW_001845656.1, NW_001846098.1,
NW_001846254.1, NW_001845874.1, NW_001846461.1, NW_001845508.1,
NW_001845939.1, NW_001846019.1, NW_001845489.1, NW_001845801.1,
NW_001845871.1, NW_001845818.1, NW_001845718.1, NW_001845807.1,
NW_001846122.1, NW_001846013.1, NW_001846304.1, NW_001845883.1,
NW_001846895.1, NW_001846108.1, NW_001845647.1, NW_001846134.1,
NW_001845719.1, NW_001845857.1, NW_001847231.1, NW_001845872.1,
NW_001845717.1, NW_001846555.1, NW_001845688.1, NW_001846803.1,
NW_001845301.1, NW_001845841.1, NW_001846363.1, NW_001845865.1,
NW_001846092.1, NW_001847054.1, NW_001845736.1, NW_001847251.1,
N

[rhagelaar]

Hi,

I might be incorrect, but it seems that you are referring to a different package. Mutational patterns doesn't use FASTA files as input nor does it calculate RPKM values. Since you refer to easy run, might it be that you are searching for: https://rdrr.io/bioc/customProDB/man/easyRun.html ?

Hope this helps,
R