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marl / GuitarSet

GuitarSet: a dataset for guitar transcription
https://zenodo.org/record/3371780
MIT License
127 stars 13 forks source link

mapToTranscripts #6

Closed zmbiolab closed 6 months ago

zmbiolab commented 6 months ago

txdb = makeTxDbFromGFF(file = GENE_ANNO_GTF, format = "gtf") peak <- list("exomePeak2/farr1/peaks.bed") GuitarPlot(txTxdb = txdb, stBedFiles = peak, headOrtail = FALSE, enableCI = FALSE, mapFilterTranscript = T,

pltTxType = c("mrna"),

       stGroupName = c("farr1")) +

ggtitle(label = "Distribution of mRNA") + theme_bw() + theme(plot.title = element_text(hjust = 0.5)) I get error: [1] "20240503151313" [1] "There are 157694 transcripts of 120646 genes in the genome." [1] "total 157694 transcripts extracted ..." [1] "total 154360 transcripts left after ambiguity filter ..." [1] "total 154360 transcripts left after check chromosome validity ..." [1] "total 0 mRNAs left after component length filter ..." [1] "total 154347 ncRNAs left after ncRNA length filter ..." [1] "generate components for mRNA" [1] "generate chiped transcriptome" [1] "20240503152316" [1] "import BED file exomePeak2/farr1/peaks.bed" [1] "sample 10 points for farr1" Error in (function (classes, fdef, mtable) : unable to find an inherited method for function 'mapToTranscripts' for signature '"GRanges", "NULL"'

bmcfee commented 6 months ago

I think you reported this issue in the wrong project?

This repo is for a music transcription dataset, and has nothing to do with biology.