seppinho/mutserve issues and pull requests

#51 - Navie question: Can I use this for Mouse mitochondrial varaint discovery?

Issue - State: open - Opened by MitoSri about 1 year ago - 1 comment

#50 - Full documentation link broken

Issue - State: open - Opened by yunhua1031 about 1 year ago - 1 comment

#49 - Heteroplasmy Detection Issue for Variants Present in Excess of 90%

Issue - State: open - Opened by BarbaraSlap over 1 year ago - 1 comment

#48 - ONT sequences

Issue - State: open - Opened by malcom23 almost 2 years ago

#47 - java.lang.IllegalArgumentException: Invalid reference index -1

Issue - State: open - Opened by ianaebutler about 2 years ago - 3 comments

#46 - Bump htsjdk from 2.23.0 to 3.0.1

Pull Request - State: open - Opened by dependabot[bot] about 2 years ago - 1 comment
Labels: dependencies

#45 - Mutserve call does not work with CRAM file

Issue - State: open - Opened by dana-obk almost 3 years ago

#44 - Example data output incorrect?

Issue - State: closed - Opened by kc199 about 3 years ago - 8 comments

#43 - java.lang.IllegalArgumentException: Invalid reference index -1

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

#42 - Features/write filtered sites

Pull Request - State: closed - Opened by seppinho about 4 years ago - 1 comment

#41 - VCF file with static reference chrM 16569

Issue - State: closed - Opened by haansi over 4 years ago - 1 comment

#40 - Bump junit from 4.12 to 4.13.1

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies

#39 - line break in raw.txt file

Issue - State: closed - Opened by haansi over 4 years ago - 1 comment

#38 - Coverage FWD / REV in variant file

Issue - State: closed - Opened by haansi over 4 years ago - 1 comment
Labels: enhancement

#37 - Optimizing annotation command

Pull Request - State: closed - Opened by lukfor over 4 years ago - 2 comments

#36 - Bump log4j from 2.13.1 to 2.13.2

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies

#35 - Features/stand alone

Pull Request - State: closed - Opened by seppinho over 4 years ago

#34 - Bump log4j from 2.13.1 to 2.13.2

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago
Labels: dependencies

#33 - htsjdk.samtools.SAMException: Unable to find entry for contig: rCRS

Issue - State: closed - Opened by Jiafeng-Li-leon almost 5 years ago - 1 comment

#32 - Exception raise up Allele in genotype

Issue - State: open - Opened by shichenhai2020 about 5 years ago

#31 - Problem raised up when I tried to call indels.

Issue - State: open - Opened by wulingyu1028 about 5 years ago

#30 - Set required coverage for alleles two 2 (see Ye et al 14)

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

#29 - Feature bayes

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

#28 - Java Memory Exception

Issue - State: closed - Opened by jdpleiness about 6 years ago - 1 comment

#27 - Indels in VCF

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

#26 - Java error message when using own data

Issue - State: closed - Opened by melnel000 over 6 years ago - 4 comments

#25 - Mixture-Mode

Issue - State: closed - Opened by haansi over 6 years ago - 1 comment
Labels: enhancement

#24 - `htsjdk.samtools.SAMException: Unable to find entry for contig: rCRS`

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

#23 - Mode for Precision ID

Issue - State: open - Opened by haansi over 6 years ago
Labels: enhancement

#22 - Move BaseAnnotation to genepi-annotate

Issue - State: open - Opened by seppinho over 6 years ago

#21 - Updated return codes.

Pull Request - State: closed - Opened by lukfor about 7 years ago - 1 comment

#20 - Build failure with 'mvn install'

Issue - State: closed - Opened by jpt1016 about 7 years ago - 1 comment

#19 - Output variants in VCF

Issue - State: closed - Opened by seppinho about 7 years ago - 10 comments
Labels: enhancement

#18 - Create LICENSE

Pull Request - State: closed - Opened by seppinho over 7 years ago

#17 - SE Alignment does not give flags back

Issue - State: closed - Opened by seppinho almost 8 years ago

#16 - report.html

Issue - State: closed - Opened by scogi about 8 years ago

#15 - Create Testcases for Heteroplasmy level

Issue - State: closed - Opened by seppinho about 8 years ago

#14 - Stats.txt file: Info what the numbers are

Issue - State: closed - Opened by scogi about 8 years ago

#13 - Add user-defined upload for reference sequence+locus annotation file

Issue - State: closed - Opened by scogi about 8 years ago

#12 - Replace variants.txt with annotate_out.txt and rename?

Issue - State: closed - Opened by scogi about 8 years ago - 1 comment

#11 - AAS annotation currently wrong

Issue - State: closed - Opened by scogi about 8 years ago
Labels: bug

#10 - Integrate a button to download all results file of a job in one click

Issue - State: closed - Opened by scogi about 8 years ago - 1 comment
Labels: enhancement

#9 - adapt screenshots in help page

Issue - State: closed - Opened by scogi about 8 years ago

#8 - remove rCRS from references

Issue - State: closed - Opened by scogi about 8 years ago

#7 - Naming of jobs

Issue - State: closed - Opened by scogi about 8 years ago - 2 comments
Labels: enhancement

#6 - Share data buttons

Issue - State: closed - Opened by scogi about 8 years ago - 1 comment

#5 - Contact page

Issue - State: closed - Opened by scogi about 8 years ago - 1 comment

#4 - Help Page Adaption

Issue - State: closed - Opened by scogi about 8 years ago - 1 comment

#3 - Paired end validation

Issue - State: closed - Opened by scogi about 8 years ago - 2 comments

#2 - Problem with CRAM references and AnySamImportFormat

Issue - State: closed - Opened by seppinho about 8 years ago
Labels: enhancement

#1 - Add Data Validator

Issue - State: closed - Opened by seppinho about 8 years ago

GitHub / seppinho/mutserve issues and pull requests