rlorigro/sv_merge issues and pull requests

#41 - Binary sequence

Pull Request - State: closed - Opened by rlorigro about 1 month ago

#40 - `min_sv_length` only affects window construction. Redundant VCF records are marked in the output.

Pull Request - State: closed - Opened by fabio-cunial about 2 months ago

#39 - SNP/small indel support in hapestry merge

Pull Request - State: closed - Opened by fabio-cunial 2 months ago

#38 - SNP/small indel support in hapestry merge

Pull Request - State: closed - Opened by fabio-cunial 2 months ago

#37 - Dev to push

Pull Request - State: open - Opened by maya-mau 4 months ago

#36 - test

Pull Request - State: closed - Opened by maya-mau 5 months ago

#35 - BND support for annotation

Pull Request - State: closed - Opened by fabio-cunial 5 months ago - 1 comment

#34 - Recall-like measure added to `analyze_evaluation.cpp`

Pull Request - State: closed - Opened by fabio-cunial 6 months ago

#33 - [evaluate/annotate] Test BNDs

Issue - State: closed - Opened by rlorigro 9 months ago

#32 - [evaluate] Window dir names should exclude flanks

Issue - State: closed - Opened by fabio-cunial 10 months ago

#31 - Improved VCF header in VcfReader

Pull Request - State: open - Opened by fabio-cunial 10 months ago - 1 comment

#30 - [evaluate] make it possible to view (un)supported.vcf with IGV

Issue - State: closed - Opened by rlorigro 10 months ago - 1 comment

#29 - [evaluate] WDLize the analysis step such that the output can be queried to find anomolous windows?

Issue - State: open - Opened by rlorigro 10 months ago

#28 - [evaluate] more efficient storage of intermediate files

Issue - State: open - Opened by rlorigro 10 months ago

#27 - [evaluate] Allow fetching of unclipped reads in BAM

Issue - State: closed - Opened by rlorigro 10 months ago - 1 comment

#26 - Manage debugging IO with a flag

Issue - State: closed - Opened by rlorigro 10 months ago

#25 - Suppress output from GraphAligner and VariantGraph

Issue - State: closed - Opened by rlorigro 10 months ago

#24 - [evaluate] Failed to read BGZF block data

Issue - State: closed - Opened by fabio-cunial 10 months ago - 1 comment
Labels: bug

#23 - Docker and WDL for graph evaluation

Pull Request - State: open - Opened by fabio-cunial 10 months ago

#22 - More flexible flanking computation in VariantGraph

Pull Request - State: open - Opened by fabio-cunial 10 months ago

#21 - More robust `VcfReader.set_sv_length()` on wrongly-formatted VCFs

Pull Request - State: open - Opened by fabio-cunial 10 months ago

#20 - Evaluation aggregator completed

Pull Request - State: open - Opened by fabio-cunial 10 months ago

#19 - Fixed flank_length vs interior_flank_length issue

Pull Request - State: closed - Opened by fabio-cunial 10 months ago - 2 comments

#18 - VariantGraph implementation completed

Pull Request - State: open - Opened by fabio-cunial 10 months ago

#17 - VariantGraph implementation completed

Pull Request - State: closed - Opened by fabio-cunial 11 months ago - 1 comment

#16 - Find windows executable

Pull Request - State: closed - Opened by rlorigro 11 months ago

#15 - Fixes for VcfRecord.genotypes and VcfReader's simple constructor

Pull Request - State: closed - Opened by fabio-cunial 12 months ago

#14 - Minor compatibility changes

Pull Request - State: closed - Opened by rlorigro 12 months ago

#13 - Clustering, leftover commit from previous PR

Pull Request - State: closed - Opened by rlorigro 12 months ago

#12 - Main executable, fetching reads, clustering reads

Pull Request - State: closed - Opened by rlorigro 12 months ago

#11 - Trying to fix the issues in the previous pull request

Pull Request - State: closed - Opened by fabio-cunial 12 months ago

#10 - Trying to fix the issues in the previous pull request

Pull Request - State: closed - Opened by fabio-cunial 12 months ago