User: jaqx008

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jaqx0080
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Posts by jaqx008

<prev • 39 results • page 1 of 4 • next >
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Comment: C: Difficulty installing GATKtoolkit
... Hello Genomax. I realized my dict file name was not same as the fast file name. I corrected that and that error was resolved. I have a new error which says my bam lacks read group and I found a command to add the read groups.I am currently running the command. Thought I should keep you posted. Thank ...
written 3 days ago by jaqx0080
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Comment: C: Difficulty installing GATKtoolkit
... I just did. The error is still on the .dict. or could it be that my reference genome is a .fa? this should be the same as .fasta I guess. ...
written 5 days ago by jaqx0080
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Comment: C: Difficulty installing GATKtoolkit
... Using a case. I am not sure what this mean. ...
written 5 days ago by jaqx0080
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Comment: C: Difficulty installing GATKtoolkit
... Are you talking about the picard version? ...
written 6 days ago by jaqx0080
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Comment: C: Difficulty installing GATKtoolkit
... Its still generating same error. Frustrating... :( ...
written 6 days ago by jaqx0080
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Comment: C: Difficulty installing GATKtoolkit
... I got the 3.3 version and it worked out with the example files that comes with it. Thanks for your suggestions. Thanks again. my command is now java -jar GenomeAnalysisTK.jar -T HaplotypeCaller -R DfarGenome.fa -I dustMapping.sorted.bam -o Dustmapping.vcf I have ensured all the supporting fi ...
written 8 days ago by jaqx0080 • updated 7 days ago by genomax40k
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Comment: C: Difficulty installing GATKtoolkit
... You are right. Let me try that and see what happens. ...
written 8 days ago by jaqx0080
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Comment: C: Difficulty installing GATKtoolkit
... Thanks. Looks good, but the error shifted to the Haplotype part. Error: Unable to access jarfile HaplotypeCAller ...
written 8 days ago by jaqx0080
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Comment: C: Difficulty installing GATKtoolkit
... I got this error. Error: Invalid or corrupt jarfile /Users/flynt/Downloads/gatk-4.0.0.0/FATK.jarfiles ...
written 8 days ago by jaqx0080
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Comment: C: Difficulty installing GATKtoolkit
... The extra $ is the one preceding the current directory. But ok, let me try. ...
written 8 days ago by jaqx0080

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