NEWS.md

In musclesyneRgies: Extract Muscle Synergies from Electromyography

musclesyneRgies 1.2.5

How to install

install.packages("remotes")
remotes::install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Removed dependency from gtools
• Removed JOSS paper folder.

musclesyneRgies 1.2.4

How to install

install.packages("remotes")
remotes::install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Increased robustness of subsetEMG
• Added tests for subsetEMG
• Updated CITATION files
• synsNMF now saves the synergy-vs-quality data.

musclesyneRgies 1.2.3

How to install

install.packages("remotes")
remotes::install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Removed ISBNs from JOSS paper bibliography.

musclesyneRgies 1.2.2

How to install

install.packages("remotes")
remotes::install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Corrected JOSS paper bibliography.

musclesyneRgies 1.2.1

How to install

install.packages("remotes")
remotes::install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Version ready for JOSS paper after spell check.

musclesyneRgies 1.2.0

How to install

install.packages("remotes")
remotes::install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Version ready for JOSS paper.

musclesyneRgies 1.1.3.9006 (development version)

How to install

install.packages("remotes")
remotes::install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Cleaned and adjusted code according to goodpractice::gp() suggestions (thanks @fabian_s for the hint!)
• Added more tests for classify_kmeans, synsNMF, subsetEMG, sMLE, normEMG, Hurst, HFD, filtEMG, plot_classified_syns_UMAP, plot_meanEMG, plot_rawEMG.

musclesyneRgies 1.1.3.9005 (development version)

How to install

install.packages("remotes")
remotes::install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Added to README the possibility to download a full data set from Zenodo
• Added definition of muscle synergies to README
• Added definition of motor modules and motor primitives to README
• Improved documentation of classify_kmeans, HFD and Hurst
• Added test for classify_kmeans.

musclesyneRgies 1.1.3.9004 (development version)

How to install

install.packages("remotes")
remotes::install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Updated tests to check for compatibility with single-column cycles.

musclesyneRgies 1.1.3.9003 (development version)

How to install

install.packages("devtools")
devtools::install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Improved robustness of EMG pre-processing functions for one-column cycle times.

musclesyneRgies 1.1.3.9002 (development version)

How to install

install.packages("devtools")
library(devtools)
install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Removed emg data frame row names in RAW_DATA list
• Updated JOSS paper draft
• rawdata can now handle RData files saved with save().

musclesyneRgies 1.1.3.9001 (development version)

How to install

install.packages("devtools")
library(devtools)
install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Added Open Journals PDF Generator GitHub Action
• First JOSS paper draft.

musclesyneRgies 1.1.3.9000 (development version)

How to install

install.packages("devtools")
library(devtools)
install_github("alesantuz/musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Improved robustness of normEMG function.

musclesyneRgies 1.1.3

How to install

install.packages("musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Faster examples and tests for CRAN
• Removed classify_NMF function.

musclesyneRgies 1.1.2

How to install

install.packages("musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• Removed all progress bars.

musclesyneRgies 1.1.1

How to install

install.packages("musclesyneRgies")

How to use

README and vignettes are available both on CRAN and on GitHub.

What's changed

• musclesyneRgies is on CRAN!
• Adjusted test-CoA.R to pass on M1mac and noLD.

musclesyneRgies 1.1.0

How to install

install.packages("devtools")
library(devtools)
install_github("alesantuz/musclesyneRgies")

How to use

Follow the README for a breakdown of the typical workflow.

What's changed

• This version was submitted to CRAN for checks
• Added tests
• Added NEWS.md to track changes to the package
• Function plot_rawEMG can now plot muscle activities in custom grid (arguments row_number and col_number)
• Line thickness and colour can now be specified in function plot_rawEMG (arguments line_size and line_col)
• Added dark mode to plot_rawEMG, plot_meanEMG, plot_syn_trials and plot_classified_syns
• Function plot_syn_trials partially rewritten with new native pipes |> and lapply instead of for loops
• Updated README
• Added CITATION.cff using R package cffr
• Simplified all plot functions, which now exports gtable objects rather tan saving to file
• Added tests for plot functions
• Added vignettes (workflow, plots, analysis and pro_tips).

musclesyneRgies 1.0.1

How to install

install.packages("devtools")
library(devtools)
install_github("alesantuz/musclesyneRgies")

How to use

Follow the README for a breakdown of the typical workflow.

What's changed

• Rectification can now be avoided in filtEMG if needed with rectif = "none"
• Functions plot_rawEMG and plot_meanEMG partially rewritten with new native pipes |> and lapply instead of for loops
• Fixed a bug in synsNMF that didn't L2-normalise M and P in iteration "zero".

musclesyneRgies 1.0.0

How to install

install.packages("devtools")
library(devtools)
install_github("alesantuz/musclesyneRgies")

What's changed

• The short-term maximum Lyapunov exponents of motor primitives can now be calculated with the new function sMLE
• Zero- or negative values in relevant matrices are now replaced with the smallest non-zero around twice as fast
• L2-normalisation within synsNMF is now 1.5-2x faster
• All code re-styled in tidyverse style using styler
• Fixed a bug in filtEMG that didn't allow to avoid low-pass filtering if needed.

musclesyneRgies 0.9.4-beta

• All code re-styled with tidyverse style using styler, plus new logo!

v1.0.0 coming soon with function for calculating the short-term maximum Lyapunov exponents of motor primitives.

musclesyneRgies 0.9.3-beta

• Improved robustness of functions subsetEMG and normEMG when cycle times are given as data frames.

musclesyneRgies 0.9.2-beta

• This not-so-minor update allows the user to extract synergies with a fixed rank.

musclesyneRgies 0.9.1-beta

• musclesyneRgies is now a R package. Follow the README for a breakdown of the typical workflow. This is the first release, still in beta.

musclesyneRgies 0.8.7-alpha

• Fixed a bug in the UMAP plots.

musclesyneRgies 0.8.6-alpha

• Housekeeping and UMAP plots of mean filtered EMG.

musclesyneRgies 0.8.5-alpha

• UMAP plots of classified synergies are saved in the NMF folder for advanced visualisation of factorisation/classification outcomes.

UMAP details: McInnes, Leland, John Healy, and James Melville. "Umap: Uniform manifold approximation and projection for dimension reduction." arXiv preprint arXiv:1802.03426 (2018).

R-package: https://cran.r-project.org/web/packages/umap/

musclesyneRgies 0.8.4-alpha

• Raw EMG plots are now saved for each trial. The last raw_pl (see line 133) seconds of the trial are considered for plots.

musclesyneRgies 0.8.3-alpha

• When reordering synergies manually during classification, the user can now repeat endlessly the classification if mistakes are made during input.

musclesyneRgies 0.8.2-alpha

• A bit of housekeeping and now the clusters found by k-means classification are saved in one plot per condition.

musclesyneRgies 0.8.1-alpha

• The robustness of k-means classification is improved and can now better deal with special cases of clusters with similar CoA and FWHM.

musclesyneRgies 0.7.3-alpha

• Now the classification method is saved in the SYNS_classified list and can be used by step 4 (graph creation) to save the classification method in the file name.

musclesyneRgies 0.7.2-alpha

• Now the classification method is saved in the file name when producing graph in step 4.

musclesyneRgies 0.7.1-alpha

• First public API of musclesyneRgies
• Fixed a bug in section 4

musclesyneRgies documentation built on July 20, 2022, 1:05 a.m.