Updating FMS-moving out of figure file and plotting functions

[nbedanova]

Moved FMS calculation to factorization file and plotting to plotGeneral file.

[Copilot]

Pull Request Overview

This PR refactors the FMS-related code by moving FMS calculation from the figure file into the factorization file and centralizing the plotting functions into a common plotting module. Key changes include:

• Activating the plot_fms_percent_drop function in the figure module with an added rank parameter.
• Adjusting the range of component indices passed to the plotting function.
• Extracting and re-implementing FMS calculation and plotting functions within the factorization and commonFuncs modules.

Reviewed Changes

Copilot reviewed 3 out of 3 changed files in this pull request and generated no comments.

File	Description
pf2rnaseq/figures/figureHeiserFMS.py	Removed redundant functions and updated plotting call parameters.
pf2rnaseq/figures/commonFuncs/plotGeneral.py	Introduced centralized plotting functions for FMS.
pf2rnaseq/factorization.py	Added FMS calculation and new plotting utility functions.

Comments suppressed due to low confidence (2)

pf2rnaseq/figures/figureHeiserFMS.py:24

• The change in the rank range from [30, 51) to [1, 31) represents a significant alteration in behavior. Please verify that this updated range aligns with the intended component indices for the FMS figures.

    ranks = list(range(1, 31))

pf2rnaseq/factorization.py:43

• The removal of the 'regParam' parameter from the pf2 function changes its interface. Confirm that all dependent code has been updated accordingly and that this change is in line with the intended design.

    tolerance=1e-9,

[aarmey]

Fantastic.