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Issues list

Example data output incorrect?
#44 by kc199 was closed Jan 17, 2022 updated Jan 17, 2022
java.lang.IllegalArgumentException: Invalid reference index -1
#43 by thesnakeguy was closed Jan 14, 2022 updated Jan 14, 2022
SE Alignment does not give flags back
#17 by seppinho was closed Jan 15, 2021 updated Jan 15, 2021
line break in raw.txt file
#39 by haansi was closed Nov 3, 2020 updated Nov 3, 2020
VCF file with static reference chrM 16569
#41 by haansi was closed Nov 3, 2020 updated Nov 3, 2020
Coverage FWD / REV in variant file enhancement
#38 by haansi was closed Sep 29, 2020 updated Sep 29, 2020
Output variants in VCF enhancement
#19 by seppinho was closed Oct 25, 2018 updated Feb 24, 2020
Indels in VCF
#27 by haansi was closed Dec 14, 2018 updated Dec 14, 2018
Java Memory Exception
#28 by jdpleiness was closed Dec 11, 2018 updated Dec 11, 2018
Java error message when using own data
#26 by melnel000 was closed Oct 25, 2018 updated Oct 25, 2018
Mixture-Mode enhancement
#25 by haansi was closed Oct 16, 2018 updated Oct 16, 2018
Build failure with 'mvn install'
#20 by jpt1016 was closed Apr 20, 2018 updated Apr 20, 2018
adapt screenshots in help page
#9 by scogi was closed Jan 12, 2018 updated Jan 12, 2018
report.html
#16 by scogi was closed Jan 12, 2018 updated Jan 12, 2018
Help Page Adaption
#4 by scogi was closed Aug 18, 2017 updated Aug 18, 2017
Problem with CRAM references and AnySamImportFormat enhancement
#2 by seppinho was closed Aug 8, 2017 updated Aug 8, 2017
Naming of jobs enhancement
#7 by scogi was closed Aug 8, 2017 updated Aug 8, 2017
remove rCRS from references
#8 by scogi was closed Aug 8, 2017 updated Aug 8, 2017
Add user-defined upload for reference sequence+locus annotation file
#13 by scogi was closed Aug 8, 2017 updated Aug 8, 2017
Create Testcases for Heteroplasmy level
#15 by seppinho was closed Aug 8, 2017 updated Aug 8, 2017
Replace variants.txt with annotate_out.txt and rename?
#12 by scogi was closed Feb 14, 2017 updated Feb 14, 2017
AAS annotation currently wrong bug
#11 by scogi was closed Feb 14, 2017 updated Feb 14, 2017
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