Ecosyste.ms: Issues

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GitHub / kishwarshafin/pepper issues and pull requests

#110 - Bug in pepper_deepvariant:r0.6 docker run_pepper_margin_deepvariant.py

Issue - State: closed - Opened by jdemeul over 3 years ago - 4 comments

#109 - Getting GVCF after variant_call completed

Issue - State: closed - Opened by GuillaumeHolley over 3 years ago - 2 comments

#108 - Intermediate bam size

Issue - State: closed - Opened by ghost over 3 years ago - 1 comment

#107 - Follow up on #101

Issue - State: closed - Opened by SHuang-Broad over 3 years ago - 8 comments

#106 - guppy 5 hac model

Issue - State: closed - Opened by rrazaghi over 3 years ago - 1 comment

#105 - Optional step - getting haplotagged BAM and phased VCF

Issue - State: closed - Opened by ghost over 3 years ago - 6 comments

#104 - HG002 dataset

Issue - State: closed - Opened by GuillaumeHolley over 3 years ago - 9 comments

#102 - Support cis index for large genomes

Issue - State: closed - Opened by kishwarshafin over 3 years ago - 1 comment

#101 - Getting phased VCF on CCS/HiFi data

Issue - State: closed - Opened by SHuang-Broad over 3 years ago - 9 comments

#100 - cuDNN error: CUDNN_STATUS_EXECUTION_FAILED

Issue - State: closed - Opened by cpllbstr over 3 years ago - 2 comments

#99 - ONT var calling pipeline doesn't seem to stop on error

Issue - State: closed - Opened by SHuang-Broad over 3 years ago - 3 comments

#98 - Parsed 0 HET VCF entries

Issue - State: closed - Opened by gchevignon over 3 years ago - 2 comments

#97 - ERROR: Can't determine and Unable to open object (bad local heap signature)

Issue - State: closed - Opened by songbowang125 over 3 years ago - 9 comments

#96 - PEPPER_VARIANT_OUTPUT_PHASING.vcf missing

Issue - State: closed - Opened by masen0407 over 3 years ago - 11 comments

#95 - container v5 error?

Issue - State: closed - Opened by RichardCorbett over 3 years ago - 3 comments

#94 - Feature request: decreasing the size of the image

Issue - State: closed - Opened by SHuang-Broad over 3 years ago - 7 comments

#93 - how to use guppy 5 model

Issue - State: closed - Opened by RichardCorbett over 3 years ago - 2 comments

#92 - Feature request: reopen #56

Issue - State: closed - Opened by SHuang-Broad over 3 years ago - 3 comments

#90 - Problem with ambiguity characters in v0.5

Issue - State: closed - Opened by GuillaumeHolley over 3 years ago - 8 comments

#88 - Is gvcf expected for CCS data with `call_variant`?

Issue - State: closed - Opened by SHuang-Broad over 3 years ago - 5 comments

#71 - docker GPU version with cuDNN error: CUDNN_STATUS_EXECUTION_FAILED

Issue - State: closed - Opened by masen0407 over 3 years ago - 26 comments

#67 - Error when running variant calling: "Expected three tokens in header line, got 2"

Issue - State: closed - Opened by kvg over 3 years ago - 15 comments

#55 - No InDels

Issue - State: closed - Opened by husamia almost 4 years ago - 16 comments
Labels: amplicon data