Unable to access jarfile

MinzhuXie / H-PoPG

H-PoP and H-PoPG: Heuristic Partitioning Algorithms for Single Individual Haplotyping of Polyploids

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Closed OlenaMaiakovska closed 5 years ago

OlenaMaiakovska commented 5 years ago

Seems like PolyPlotyping.jar file is missing..

MinzhuXie commented 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

OlenaMaiakovska commented 4 years ago

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

MinzhuXie commented 4 years ago

Sorry for the typo. PolyPlotyping.jar should be H-PoPGv0.2.0.jar