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We wanted to do regression analysis on a subpopulation of 10,000 UK Biobank participants for 12 imputed SNPs on the RAP platform. It would be very helpful if you could guide us on how to proceed with the analysis on the RAP platform.
- Former User of DNAx Community_93
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Are there commands similar to squeue, scancel in SLURM for batch submitted jobs using dx run on UKB/RAP? Or any scripts available?
- Permanently deleted user
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Best alternative to lofreq in Swiss Army Knife?
- Permanently deleted user
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Webinar Sept 22: Using Docker for Reproducible Research on the Research Analysis Platform
- Brenton Pyle
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How to fix QCtool code to filter bgen file?
- Former User of DNAx Community_40
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dx error: unrecognized arguments for REGENIE
- Former User of DNAx Community_52
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Cohort Browser geno filters high impact variant with OR
- Former User of DNAx Community_30
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Issue retrieving the data field 23196 ? Whole genome GATK joint call pVCF
- Former User of DNAx Community_30
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Whole genome GraphTyper joint call pVCF README with chromosome section specification
- Former User of DNAx Community_30
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Best resources for joint call pVCF exploration?
- Former User of DNAx Community_30
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Is there a way to run an R script with a specified environment (snapshot) and instance type?
- Former User of DNAx Community_13
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Is it posible obtain a Cohort with all the Pathogenic Variants in a gene?
- Former User of DNAx Community_2
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Get EID of variant carriers from pVCF?
- Permanently deleted user
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Performing GWAS on RAP using DX toolkit and swiss-army-knife
- Former User of DNAx Community_28
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How to import a VCF file? File not found error when importing VCF file with Hail
- Former User of DNAx Community_14
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I get 'low disk space during this job' warning and my job gets aborted..im using plink via Swiss Army Knife..How can I fix this?
- Former User of DNAx Community_3
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What are your thoughts about subsetting to EA or not for WES rare variant analysis ?
- Former User of DNAx Community_95
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Hi, Can you please tell me if UKBB has and shares mitochondrial DNA sequence of participants? As a researcher in a private company, am I allowed to ask for the data? And how long does it take from the data request to access to data? Thank you very much.
- Former User of DNAx Community_81
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can you match plink output to EIDs?
- Former User of DNAx Community_37
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How do I create a specific cohort of particular phenotypes (e.g Participants with AML)?
- Former User of DNAx Community_2
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Hello, I have a question regarding launching scripts from the CLI. I submitted a batch script from the CLI. All of my scripts were completed successfully, but the output hasn't been saved. I'm not sure where I'm going wrong. Thanks for your help!
- Former User of DNAx Community_72
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Hello. Do you, or anyone in the team, know if UKB now have access to all the GP records of the second half of participants in England (first half have been linked since 2016). If UKB do not have access, is there a proposed date when they will? Best wishes
- Former User of DNAx Community_76
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Parallel analyses on WGS files
- Former User of DNAx Community_56
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Hello, 1) are the plink files for the WGS going to be available soon? 2) I need help to run batch jobs on SAK
- Former User of DNAx Community_56
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What is the best way to use git with the DNANexus platform?
- Former User of DNAx Community_57
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Does the UK Biobank provides access to individual genomes/proteomes?
- Former User of DNAx Community_50
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Is it possible to perform a Burden Test using a defined set of filtered variants (in a pVCF) to check for association on phenotypic expression?
- Permanently deleted user
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How to easily download/mount many input files in a script or the CLI , onto the temporary worker?
- Former User of DNAx Community_12
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Does anyone know why I keep getting this message on the cohort browser: 'An error occured when loading cohort count. Please try again later.'
- Former User of DNAx Community_37
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