Abrish
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Activity overview
Latest activity by Abrish-
Abrish commented,
Dear Genevieve Brandt (she/her) , Thank you so much.
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Abrish commented,
Hi Genevieve Brandt (she/her) , Thank you so much. I had used -L Covered.bed -ip 100 parameter for GATK Haplotype Caller program. I would like to know that Should I use -L Region.bed -ip 100 param...
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Abrish commented,
Dear Genevieve Brandt (she/her), Thank you so much. Here in the given link below, I have explained the same query in detail. https://gatk.broadinstitute.org/hc/en-us/community/posts/4656472336283-...
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Abrish created a post,
Query regarding Intervals and interval lists for Target Enrichment Sequecing
Answeredhttps://gatk.broadinstitute.org/hc/en-us/articles/360035531852-Intervals-and-interval-lists Intervals and interval lists: As it has been mentioned in the given above link article that (the interval...
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Abrish commented,
I would like to update regarding previous Query, I would like to mention once again that for target enrichment sequencing, we sequenced multiple specific regions of specific chromosomes. In my case...
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Abrish created a post,
Query regarding Haplotype Caller
Answered/home/anaconda3/share/gatk4-4.2.4.0-0/gatk HaplotypeCaller --java-options -Xmx100g -R genome.fa -I fixed.bam -O NmMdAndUqTag_fixed.g.vcf.gz -ERC GVCF --minimum-mapping-quality 20 --min-base-quali...
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Abrish commented,
Ok, Thank you so much. I will check.
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Abrish created a post,
gatk4-4.2.4.0-0 Fixmate Error
AnsweredI would be grateful If I could get help regarding this error. shaded.cloud_nio.com.google.auth.oauth2.ComputeEngineCredentials runningOnComputeEngineINFO: Failed to detect whether we are running o...
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Abrish commented,
Dear Genevieve Brandt (she/her), Thank you so much.
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Abrish commented,
Hi Genevieve Brandt (she/her) , Thank you so much .. I had read the article, But it is kind of confusing for me. I would like to clarify only one thing that both ways are correct regarding adding...