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GATK GermlineCNVCaller: X and Y genotyped as autosomal in PostprocessGermlineCNVCalls
bugSomething isn't workingSomething isn't workingStatus: Open.#965 In nf-core/raredisease;Pipeline not using fasta from igenomes
bugSomething isn't workingSomething isn't workingStatus: Open.#934 In nf-core/raredisease;Run mitosalt with bam input
enhancementImprovement for existing functionalityImprovement for existing functionalityStatus: Open.#901 In nf-core/raredisease;Unsafe pattern in
annotate_genome_snvs?bugSomething isn't workingSomething isn't workingStatus: Open.#868 In nf-core/raredisease;- Status: Open.#860 In nf-core/raredisease;
Add optional parameters for SV/SNV filtering and calling configuration
enhancementImprovement for existing functionalityImprovement for existing functionalityStatus: Open.#822 In nf-core/raredisease;cnvnator/cnvnator: Wave container fails with missing assert.h on Red Hat Enterprise Linux 8
bugSomething isn't workingSomething isn't workingStatus: Open.#817 In nf-core/raredisease;Add MIVMIR, GICAM models for SNV ranking
enhancementImprovement for existing functionalityImprovement for existing functionalityStatus: Open.#816 In nf-core/raredisease;SPLIT_MULTIALLELICS_SEN: --multiallelics -both causes indel precision degradation (~4%) in single-interval runs
bugSomething isn't workingSomething isn't workingStatus: Open.#813 In nf-core/raredisease;User Story: Full tests for all subworkflows
enhancementImprovement for existing functionalityImprovement for existing functionalityStatus: Open.#795 In nf-core/raredisease;Test gens in pipeline tests
enhancementImprovement for existing functionalityImprovement for existing functionalityStatus: Open.#786 In nf-core/raredisease;Restrict variant calling and annotations to certain regions
enhancementImprovement for existing functionalityImprovement for existing functionalityStatus: Open.#740 In nf-core/raredisease;