Ecosyste.ms: Issues

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GitHub / dantaki/SV2 issues and pull requests

#35 - Error: Too many open files

Issue - State: open - Opened by juanjingmiao over 1 year ago

#34 - Genotype and merge VCFs from different samples

Issue - State: open - Opened by Talo07 about 2 years ago

#32 - Added reference fasta paths for use with crams.

Pull Request - State: closed - Opened by mchowdh200 almost 5 years ago

#31 - False positive findings of de novo calling

Issue - State: open - Opened by WeiCSong about 5 years ago

#30 - module 'ntpath' has no attribute 'walk'

Issue - State: open - Opened by Totalstorm over 5 years ago - 1 comment

#29 - de novo

Issue - State: closed - Opened by callaL over 5 years ago - 1 comment

#28 - setting the reference

Issue - State: closed - Opened by fritzsedlazeck over 5 years ago - 2 comments

#27 - Allow specification of custom classifier paths.

Pull Request - State: closed - Opened by holtgrewe over 5 years ago

#26 - Dependencies missing from setup.py?

Issue - State: open - Opened by holtgrewe almost 6 years ago - 4 comments

#25 - Is combined multiple samples same as joint calling

Issue - State: closed - Opened by justme66 over 6 years ago - 10 comments

#24 - reasonable prefiltering of CNV calls

Issue - State: closed - Opened by furbelows over 6 years ago - 1 comment

#23 - Preprocessing with read_count==0 and time-consuming problem

Issue - State: closed - Opened by justme66 over 6 years ago - 3 comments

#22 - runtime and one chromosome test

Issue - State: closed - Opened by justme66 over 6 years ago - 2 comments

#21 - stringent de novo filter explanation

Issue - State: closed - Opened by justme66 over 6 years ago - 2 comments
Labels: question

#20 - strelka2 compatibility

Issue - State: closed - Opened by carleshf over 6 years ago - 1 comment

#19 - Skipping bad entry

Issue - State: closed - Opened by carleshf over 6 years ago - 1 comment

#18 - Error message does not output

Issue - State: closed - Opened by sunnyzxh over 6 years ago - 5 comments

#17 - Argument -s/-seed: invalid int value: 'np'

Issue - State: closed - Opened by carleshf over 6 years ago - 8 comments

#16 - No error and no output for sv2

Issue - State: closed - Opened by carleshf over 6 years ago - 2 comments

#15 - Is SV2 suitable for plant genomes?

Issue - State: closed - Opened by songtaogui over 6 years ago - 2 comments

#14 - NOALT filter

Issue - State: closed - Opened by Madelinehazel over 6 years ago - 1 comment

#13 - Users can now specify the config INI file

Pull Request - State: closed - Opened by holtgrewe over 6 years ago

#12 - Fixing VCF format problems

Pull Request - State: closed - Opened by holtgrewe over 6 years ago

#11 - Moving INFO/DENOVO_FILTER into FORMAT?

Issue - State: closed - Opened by holtgrewe over 6 years ago - 2 comments

#10 - Running without install step (aka "config on the command line")

Issue - State: closed - Opened by holtgrewe over 6 years ago - 2 comments

#9 - Invalid generated VCF

Issue - State: closed - Opened by holtgrewe over 6 years ago - 1 comment
Labels: bug

#8 - ValueError: could not create iterator for region 'X:2745094-2745111'

Issue - State: closed - Opened by Varunachander almost 7 years ago - 3 comments

#7 - sv2 python IndexError

Issue - State: closed - Opened by mesnger almost 7 years ago - 7 comments
Labels: bug

#6 - some questions on using this tool

Issue - State: closed - Opened by ytguojian almost 7 years ago - 1 comment
Labels: question

#5 - add python_requires to setup.py

Pull Request - State: closed - Opened by timothymillar almost 7 years ago - 1 comment

#4 - Question about output

Issue - State: closed - Opened by fritzsedlazeck almost 7 years ago - 12 comments
Labels: enhancement

#3 - Test data run

Issue - State: closed - Opened by fritzsedlazeck almost 7 years ago - 2 comments

#2 - What about a bioconda package?

Issue - State: closed - Opened by holtgrewe almost 7 years ago - 12 comments
Labels: enhancement

#1 - genotyping error - sklearn: NotFittedError: This SVC instance is not fitted yet

Issue - State: closed - Opened by amaiacc over 7 years ago - 6 comments