Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / mroosmalen/nanosv issues and pull requests

#79 - NanoSV doesn't play nicely with guppy BAM file output

Issue - State: open - Opened by adbeggs over 1 year ago - 3 comments

#78 - Creating BED file problems

Issue - State: closed - Opened by martika1997 almost 2 years ago

#77 - multithread not quite working

Issue - State: open - Opened by xiaoyunguo about 3 years ago

#76 - Can nanoSV take both short and long reads?

Issue - State: open - Opened by hbadrane over 3 years ago

#75 - Phasing mode not working

Issue - State: open - Opened by yekaizhou over 3 years ago

#74 - what is an appropriate bed file?

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

#71 - Why 1M lines in the bed file?

Issue - State: open - Opened by utrivedi about 4 years ago

#70 - Incorrect output + Slow VCF writing

Issue - State: open - Opened by GuillaumeHolley over 4 years ago

#69 - DR and DV fields on VCF

Issue - State: closed - Opened by dangeles over 4 years ago

#68 - .bed and .init files are executable

Issue - State: open - Opened by smoe over 4 years ago

#67 - setup.py: README.fst -> README.md

Pull Request - State: open - Opened by smoe over 4 years ago

#66 - Please tag releases

Issue - State: open - Opened by smoe over 4 years ago

#65 - conda installation is not working ?

Issue - State: open - Opened by ptranvan over 4 years ago - 1 comment

#64 - What is the human_hg19.bed file looks like?

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

#63 - Output with breakends

Issue - State: closed - Opened by zahrahaider almost 5 years ago

#62 - Busy with printing to vcf...

Issue - State: open - Opened by ndierckx almost 5 years ago - 5 comments

#61 - NanoSV with truvari

Issue - State: open - Opened by Tintest about 5 years ago - 3 comments

#60 - cannot call NanoSV after installing with conda

Issue - State: closed - Opened by BCArg about 5 years ago - 2 comments

#59 - NanoSV is not working

Issue - State: open - Opened by amrita1983 about 5 years ago - 1 comment

#58 - Conda install nanosv 1.2.4

Issue - State: closed - Opened by max1c over 5 years ago - 9 comments

#57 - NanoSV takes too long parsing BAM file in plant genome

Issue - State: closed - Opened by metoru almost 6 years ago - 8 comments

#56 - Dev

Pull Request - State: closed - Opened by mroosmalen about 6 years ago

#55 - Output reads supporting events?

Issue - State: closed - Opened by mattdmem about 6 years ago

#54 - VCF Filters

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

#53 - Update create_random_position_bed.sh

Pull Request - State: closed - Opened by jaesvi about 6 years ago

#52 - NanoSV takes too long parsing BAM file

Issue - State: closed - Opened by fanavarro about 6 years ago - 7 comments

#51 - Fixed some minor bugs in scripts/create_random_position_bed.py

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

#50 - Dev

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

#49 - Provided Bedfile is not hg19 coordinate

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

#48 - ID and MATEID

Issue - State: closed - Opened by tgong1 over 6 years ago - 1 comment

#46 - RF filtering model availability

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

#44 - Genotype information: format field in VCF

Issue - State: closed - Opened by tgong1 over 6 years ago - 2 comments

#43 - Can't calculate coverage distribution.

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

#42 - new release v1.2.0

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

#41 - Update config.ini

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

#40 - Update README.md

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

#39 - Dev

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

#38 - Wkloosterman patch 1

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

#37 - Wkloosterman patch 1

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

#36 - New

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

#35 - New

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

#34 - BND and other SVtypes

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

#33 - SV type inference and coverage depth

Issue - State: closed - Opened by tgong1 over 6 years ago - 4 comments

#32 - error of last-train

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

#30 - Update config.ini

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

#29 - coverage

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

#28 - Dev

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

#27 - Dev

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

#26 - Dev

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

#25 - master to dev

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

#24 - NanoSV on synthetic bam files

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

#23 - Add configuration option to use multiple threads with sambamba

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

#22 - Scripts + cleanup

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

#21 - Instructions on generating BED file reference

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

#20 - Use multiple processes

Issue - State: closed - Opened by wdecoster over 6 years ago - 3 comments
Labels: enhancement

#19 - Question about the calculation of gap value.

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

#18 - Add bioconda installation option

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

#17 - AttributeError: 'module' object has no attribute 'sample_name'

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

#16 - Dev

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

#15 - Bug fixes

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

#14 - ZeroDivisionError in getDupDelcoverage due to awk NR!=1

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

#13 - Inappropriate bed file leads to silent issue*** (?)

Issue - State: closed - Opened by wdecoster over 6 years ago

#12 - Bam file without index results in late error

Issue - State: closed - Opened by wdecoster over 6 years ago

#11 - Writing to stdout: unexpected calls to print

Issue - State: closed - Opened by wdecoster over 6 years ago

#10 - Version 1.1.0

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

#9 - Make version numbers more obvious

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

#8 - divide by zero error while running

Issue - State: closed - Opened by MMicorescu over 6 years ago

#7 - Dev

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

#6 - Error while running

Issue - State: closed - Opened by amrita1983 almost 7 years ago - 4 comments

#5 - how to correctly convert maf to sam

Issue - State: closed - Opened by fcdn007 almost 7 years ago - 1 comment

#4 - -pidf argument can't take a new value.

Issue - State: closed - Opened by MattBashton almost 7 years ago

#3 - Documentation on parameters

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

#2 - License?

Issue - State: closed - Opened by druvus over 7 years ago

#1 - request to work with other aligners

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