Seismic-rna

Latest version: v0.16.1

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0.11.3

Deep pooling

- You can now use `seismic pool` to pool together samples that are themselves pooled. The original samples will be deduplicated if they appear in multiple pooled samples.

**Full Changelog**: https://github.com/rouskinlab/seismic-rna/compare/v0.11.2...v0.11.3

0.11.2

Bug Fixes

- Fixed bug where Fold and Export steps crashed with pooled samples (non-pooled samples still ran successfully).

**Full Changelog**: https://github.com/rouskinlab/seismic-rna/compare/v0.11.1...v0.11.2

0.11.1

Bug fixes

- Fixed a minor bug where the window size and minimum data appeared twice in file names of rolling correlation/comparison graphs from `seismic graph corroll`.

**Full Changelog**: https://github.com/rouskinlab/seismic-rna/compare/v0.11.0...v0.11.1

0.11.0

New Features

- New command `seismic pool` allows you to pool samples after `seismic relate`. The archetypal use case would be if you have two or more replicate samples and you want to pool them to treat them as one sample.

Documentation

- Documentation has been updated to include `seismic pool`.

API Internals

- `seismicrna.core.data` has been largely rewritten to accommodate pooled datasets.

**Full Changelog**: https://github.com/rouskinlab/seismic-rna/compare/v0.10.0...v0.11.0

0.10.0

Features

- Five new types of graphs:

- `histpos`: histogram of mutations per position
- `histread`: histogram of mutations per read
- `roc`: receiver operating characteristic (ROC)
- `aucroll`: rolling area under the curve of ROC
- `corroll`: rolling correlation/comparison between profiles

- Graphs `seqbar` and `diffbar` were renamed to `profile` and `delprof`, respectively.
- Graphs that compare pairs of tables (`corroll`, `delprof`, and `scatter`) can now compare all combinations of 2 tables from a list (with `--comppair`) as well as compare each table to itself (with `--compself`).

Documentation

- Documentation for how to use the main workflow is now up to date.

What's Changed
* 0.10.0 by matthewfallan in https://github.com/rouskinlab/seismic-rna/pull/9


**Full Changelog**: https://github.com/rouskinlab/seismic-rna/compare/v0.9.8...v0.10.0

0.9.8

Bugfixes

- Fixed bug where VARNA color values would be output in scientific notation instead of plain decimal notation, causing some programs to fail when parsing them.

**Full Changelog**: https://github.com/rouskinlab/seismic-rna/compare/v0.9.7...v0.9.8

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