v0.4.1 bugfix

Bug fixed: read.tapestation failed when ladder (e.g. Electronic Ladder) was duplicated.

v0.4.0 annotations

New feature: Read custom sample annotations from a data frame or a file with annotate.electrophoresis. This feature is also added to the script bioanalyze.R, so you can add and analyze variables from the command line.

Bug fix: read.tapestation now uses grepl to find the string Ladder anywhere in the sample observations for identifying ladders, rather than expecting a perfect match, since the sample observations sometimes include other text about e.g. an expired ScreenTape.

v0.3.2 bugfix

fixed bug: read.electrophoresis was failing on Bioanalyzer data from partially empty chips

v0.3.1 area alpha in facets

qplot.electrophoresis now uses alpha transparency for geom_area, set by the area.alpha argument, regardless of whether the plot uses faceting.

v0.3.0 safer TapeStation data importing and more

• Failed lanes in a TapeStation run no longer prevent the entire run from being read.
• read.electrophoresis is parallelized (except in Windows).
• Calibration is encapsulated in a unified function for each step.
• integrate.peak and integrate.region are renamed and now integrate the specified peaks/regions by index instead of all of them.
• qc.electrophoresis no longer throws warnings in normal situations.

v0.2.0 better TapeStation data importing and more

Warning: TapeStation gel images exported under the previous instructions cannot be read with this new version. You must re-export old gel images with the new instructions (no marker annotations). Old XML files are still usable.

• Import TapeStation gel images without the marker bands overlaid, so the marker data can be read as well.
• Use the TapeStation marker data to calibrate each sample's mass coefficient separately.
• Replace qplot.electrophoresis's peak.fill argument with show.peaks and automatically color-code them if peak.observations is available.
• Remove the mass.coefficients member of the electrophoresis class.
• Add fit to electrophoresis$assay.info.
• More stringently avoid extrapolation out of the mobility model's input range to prevent bugs.

first release

First release of bioanalyzeR 0.1.0.