Changes in version 0.1.3.999                      

New features

Major changes

Minor changes

Bug fixes

                 Changes in version 0.1.3 (2023-02-18)                  

Minor changes

  - Using select() in place of the deprecated select_() function in
    qc_aggregate() and qc_problems() (#24)
  - Using arrange() and group_by() in place of the deprecated arrange_()
    and group_by()_ functions in qc_problems()
  - Changing http to https for urls concerning fastc installation and
    documentation
  - qc_read_collection() and qc_plot_collection() examples reduced to
    less than 5 seconds

Bug fixes

  - Remove extra args (fill) in left_join() from qc_aggregate() function
    (#23)

                 Changes in version 0.1.2 (2019-01-02)                  

Bug fixes

  - Revert "Fix for readr 1.2.0": readr 1.3.0 changes the skip line
    behavior to match that of readr 1.1.1, the change in 1.2.0 was
    determined to be too disruptive (@jimhester, #11).

                 Changes in version 0.1.1 (2018-12-06)                  

New features

New functions added to read and plot a collection of samples together:

  - qc_read_collection() (@MahShaaban , #4)
  - qc_plot_collection() (@MahShaaban , #4)

When possible, the data from multiple samples are overlayed on a single
graph and otherwise on multiple facets (when there is more than one line
in a one sample plot). As with plotting the single file modules, the
function qc_plot_collection() dispatches on the appropriate class
qc_read_collection() and calls the internals corresponding to the input
of the argument modules.

Bug fixes

  - Fix for readr 1.2.0 (@jimhester, #7)

Minor changes

  - New argument fastqc.path added to the function fastqc().

Bug fixes

                 Changes in version 0.1.0 (2017-04-11)                  

Bug fixes

  - Now, qc_report() handles better relative paths to FastQC zipfiles
    (@ACharbonneau, #1)

New features

  - fastqc_install(): Install the latest version of FastQC tool on Unix
    systems (MAC OSX and Linux)

  - fastqc(): Run the FastQC tool from R.

  - qc <- qc_aggregate(): Aggregate multiple FastQC reports into a data
    frame.

  - summary(qc): Generates a summary of qc_aggregate.

  - qc_stats(qc): General statistics of FastQC reports.

  - qc_fails(qc): Displays samples or modules that failed.

  - qc_warns(qc): Displays samples or modules that warned.

  - qc_problems(qc, "sample"): Union of qc_fails() and qc_warns().
    Display which samples or modules that failed or warned.

  - qc_read(): Read FastQC data into R.

  - qc_plot(qc): Plot FastQC data

  - qc_report(): Create an HTML file containing FastQC reports of one or
    multiple files. Inputs can be either a directory containing multiple
    FastQC reports or a single sample FastQC report.

  - qc_unzip(): Unzip all zipped files in the qc.dir directory.