VizBin

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Bumps commons-io from 2.4 to 2.7. [](https://docs.github.com/en/github/managing-security-vulnerabilities/about-dependabot-security-updates#about-compatibility-scores) Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a...

dependabot[bot]

Bumps [junit](https://github.com/junit-team/junit4) from 4.12 to 4.13.1. Release notes Sourced from junit's releases. JUnit 4.13.1 Please refer to the release notes for details. JUnit 4.13 Please refer to the release notes...

dependabot[bot]

Feature request: sequencing masking

1

I'd like Vizbin to recognize masked sequences, i.e. ignore small letters. This would be useful to ignore e.g. 16S regions or other regions that obscure kmer profiles. Usually, the user...

a-h-b

Dependencies errors

5

Just downloaded the latest version from GitHub: https://github.com/claczny/VizBin when running the setup I got these errors: Downloads/VizBin/setupUbuntu.sh Reading package lists... Done Building dependency tree Reading state information... Done Note, selecting...

amrdavila

When visualizing sequences that are derived from a larger collection (say, 20) of labels, the symbols for "circle" and for "rectangle" are not consistent between the legend and the main...

claczny

Problems in polygonal selection with very deep zooming

1

When zooming in deeply and doing a polygonal selection it seems that the decision if a point belongs to a cluster (`contains()`) becomes problematic: ![screen shot 2014-12-02 at 08 13...

claczny

The user can pretty much provide any file as input, even it is not a FASTA file. This should be checked more stringently and communicated to the user.

claczny

Currently, the `DataSetFactory` normalizes the GC and coverage values of a `Sequence` with respect to the maximum in the `DataSet`. However, this should **not** be done in this way. The...

claczny

Currently, VizBin stores the FASTA sequences in memory. This typically works well for current (i.e., short read-based, say Illumina) metagenomic assembly results. However, third-generation sequencing (e.g., PacBio, ONT) may result...

claczny

Ant build of devel branch fails

31

Greetings I used VizBin in the past, and it has never disappointed. It is a very good tool to visualize a spatial dispersion of the contigs, and very easy to...

iquasere