cumc xqtl-protocol · Discussions · GitHub

Should genotype QC focus on samples passing phenotype QC?
Workflow logic gaow

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Caution to users

hsun3163 started May 12, 2023 in General

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Using GWAS-VCF format for xQTL results [Correspondence between Edoardo Marcora and Gao Wang]

gaow started May 4, 2022 in Ideas

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Should we/when should we exclude chrM/X/Y in our analysis?

hsun3163 started Feb 17, 2022 in Default analysis setting

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RNA-seq calling pipeline feedback

gaow started Feb 17, 2022 in General

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Whether should we force ENSG ID to be unique identifier.

hsun3163 started Feb 9, 2022 in General

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RNA-seq calling default setting
help wanted Extra attention is needed question Further information is requested
gaow started Jan 31, 2022 in Default analysis setting

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VCF data QC default setting

gaow started Jan 31, 2022 in Default analysis setting

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PCA on genotype default setting

gaow started Jan 25, 2022 in Default analysis setting

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Genotype QC default setting

gaow started Jan 24, 2022 in Default analysis setting

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Should genotype QC focus on samples passing phenotype QC?

gaow started Jan 19, 2022 in Workflow logic

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