search

kvittingseerup / IsoformSwitchAnalyzeR

An R package to Identify, Annoatate and Visialize Isoform Switches with Functional Consequences (from RNA-seq data)
100 stars 18 forks source link

Amino acid sequence files are too huge for PFAM scan (web version) #211

Closed ElvaWong closed 1 year ago

ElvaWong commented 1 year ago 
# I extracted the AA sequence files using the following codes:

SwitchList_extract.ORF <- extractSequence(
        SwitchList_analyzed.p1, 
        pathToOutput = 'C:/Users/elvag/Desktop/Research_Practice/Programming_document/R/Iso-switch',
        writeToFile= TRUE,
        removeLongAAseq=TRUE,
        alsoSplitFastaFile=TRUE
)

# However, the subset files are too huge for the web version of PFAM scan. 
# I got this notification by uploading 1 fasta file: Only 100 sequences allowed