GenomeGraphs v0.1.0
A very first release of GenomeGraphs, with functionality for building a DeBruijn graph from paired-end reads.
This is not a stable release.
It may not work for all users (haven't tested Windows in particular).
Closed issues:
- Basic De-Bruijn Graph type (#1)
- Typo in Links.jl (#2)
- Error when including BioSequenceGraphs.jl (#3)
- Maybe a typo in SequenceGraph.jl (#4)
- Node merging and Edge Collapsing (#5)
- Checking the last updates (#6)
- Generating Contigs using UG and Reads (#9)
- Adversarial testing datasets: PhiX (#11)
- Error Correction (#12)
- Graph construction is currently subject to the circle problem (#13)
Merged pull requests:
- Gsoc/dbg (#8) (@ardakdemir)
- Create basic SequenceDistanceGraph and DBG building based on Arda's code (#10) (@benjward)
- Basic serial, in memory kmer counting (#14) (@benjward)
- Merge tip-clipping from GSoC into GenomeGraphs framework (#15) (@benjward)
- Implement draft of perfect circle resolution for the dbg constructor (#16) (@benjward)
- Reorganise some code into "Graphs" submodule (#17) (@benjward)
- Add draft of MerTools submodule (#18) (@benjward)
- CompatHelper: add new compat entry for "FASTX" at version "1.1" (#20) (@github-actions[bot])
- CompatHelper: add new compat entry for "ReadDatastores" at version "0.1" (#21) (@github-actions[bot])