Entering edit mode
4.2 years ago
sruthi ▴ 40
Hi, I'm new to Microsatellite instability and trying to work on msiSENSOR tool. I tried uploading a bam file in msisensor using the command:
msisensor -d microsatellites.list -t tumor.bam -o output.tumor.prefix
And it says: failed to open homopolymers and microsatellites file I checked the path and it is correct. Could any one tell me what has gone wrong and how I must troubleshoot?
The error is rectified.
Hi, I was calculating MSI for tumor only sample using the below command:
And it also says,
Hi all, I'm calculating MSI for tumor only sample using the below command: msisensor -d microsatellites.list -t tumor.bam -e bed.file -o output.tumor.prefix
I have tried the command for 3 different files and getting 0 for Number of MSI sites. Is there something that I've done wrongly? TIA