Closed OlenaMaiakovska closed 5 years ago
java -jar H-PoPGv0.2.0.jar -b thefilename.bam -v thefilename.vcf -p n_ploid -o outputfile.txt -d outputACGT.txt
I was wondering how to access PolyPlotyping.jar file in order to create Frag file?
In your readme protocol: 3) Only transfer a BAM File to a Frag file (the read covering less than 2 SNPs are discarded):
java -jar PolyPlotyping.jar -v[cf] vcffilename -b[am] bamfilenme -o outputFragFilename -b2f
Sorry for the typo. PolyPlotyping.jar should be H-PoPGv0.2.0.jar
Seems like PolyPlotyping.jar file is missing..