v1.27.1

Those 6 ChIP-seq profiles similarity metrics are calculated using similaRpeak::similarity() function:

• RATIO_AREA: The ratio between the areas. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• DIFF_POS_MAX: The difference between the maximal peaks positions. The difference is always a positive value.
• RATIO_MAX_MAX: The ratio between the maximal peaks values. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• RATIO_INTERSECT: The ratio between the intersection area and the total area. NA if minimal threshold is not respected.
• RATIO_NORMALIZED_INTERSECT: The ratio between the intersection area and the total area of two normalized profiles. The profiles are normalized by dividing them by their average value. NA if minimal area threshold is not respected for the intersection area.
• SPEARMAN_CORRELATION: The Spearman's rho statistic between profiles.

The package can be installed in command line mode, once the source code (please see below) has been downloaded:
The package can be installed in command line mode, once the source code (please see below) has been downloaded:

R CMD INSTALL similaRpeak_1.27.1.tar.gz

or by the RStudio menu option:

Tools>Install Packages > Select "Package Archive File"

v1.1.0

Those 6 ChIP-seq profiles similarity metrics are calculated using similaRpeak::similarity() function:

• RATIO_AREA: The ratio between the areas. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• DIFF_POS_MAX: The difference between the maximal peaks positions. The difference is always a positive value.
• RATIO_MAX_MAX: The ratio between the maximal peaks values. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• RATIO_INTERSECT: The ratio between the intersection area and the total area. NA if minimal threshold is not respected.
• RATIO_NORMALIZED_INTERSECT: The ratio between the intersection area and the total area of two normalized profiles. The profiles are normalized by dividing them by their average value. NA if minimal area threshold is not respected for the intersection area.
• SPEARMAN_CORRELATION: The Spearman's rho statistic between profiles.

The package can be installed in command line mode, once the source code (please see below) has been downloaded:
The package can be installed in command line mode, once the source code (please see below) has been downloaded:

R CMD INSTALL similaRpeak_1.1.0.tar.gz

or by the RStudio menu option:

Tools>Install Packages > Select "Package Archive File"

v0.99.3

Those 6 ChIP-seq profiles similarity metrics are calculated using similaRpeak::similarity() function:

• RATIO_AREA: The ratio between the areas. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• DIFF_POS_MAX: The difference between the maximal peaks positions. The difference is always a positive value.
• RATIO_MAX_MAX: The ratio between the maximal peaks values. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• RATIO_INTERSECT: The ratio between the intersection area and the total area. NA if minimal threshold is not respected.
• RATIO_NORMALIZED_INTERSECT: The ratio between the intersection area and the total area of two normalized profiles. The profiles are normalized by dividing them by their average value. NA if minimal area threshold is not respected for the intersection area.
• SPEARMAN_CORRELATION: The Spearman's rho statistic between profiles.

The package can be installed in command line mode, once the source code (please see below) has been downloaded:

R CMD INSTALL similaRpeak_0.99.3.tar.gz

or by the RStudio menu option:

Tools>Install Packages > Select "Package Archive File"

v0.99.2

Those 6 ChIP-seq profiles similarity metrics are calculated using similaRpeak::similarity() function:

• RATIO_AREA: The ratio between the areas. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• DIFF_POS_MAX: The difference between the maximal peaks positions. The difference is always a positive value.
• RATIO_MAX_MAX: The ratio between the maximal peaks values. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• RATIO_INTERSECT: The ratio between the intersection area and the total area. NA if minimal threshold is not respected.
• RATIO_NORMALIZED_INTERSECT: The ratio between the intersection area and the total area of two normalized profiles. The profiles are normalized by dividing them by their average value. NA if minimal area threshold is not respected for the intersection area.
• SPEARMAN_CORRELATION: The Spearman's rho statistic between profiles.

The package can be installed in command line mode, once the source code (please see below) has been downloaded:

R CMD INSTALL similaRpeak_0.99.2.tar.gz

or by the RStudio menu option:

Tools>Install Packages > Select "Package Archive File"

v0.99.1

Those 5 ChIP-seq profiles similarity metrics are calculated using similaRpeak:::similarity() function:

• RATIO_AREA: The ratio between the areas. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• DIFF_POS_MAX: The difference between the maximal peaks positions. The difference is always a positive value.
• RATIO_MAX_MAX: The ratio between the maximal peaks values. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• RATIO_INTERSECT: The ratio between the intersection area and the total area. NA if minimal threshold is not respected.
• RATIO_NORMALIZED_INTERSECT: The ratio between the intersection area and the total area of two normalized profiles. The profiles are normalized by dividing them by their average value. NA if minimal area threshold is not respected for the intersection area.

The package can be installed in command line mode, once the source code has been downloaded:

R CMD INSTALL similaRpeak_0.99.1.tar.gz

or by the RStudio menu option:

Tools>Install Packages > Select "Package Archive File"

v0.99.0

Those 4 ChIP-seq profiles similarity metrics are calculated using similaRpeak::similarity() function:

• RATIO_AREA: The ratio between the areas. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• DIFF_POS_MAX: The difference between the maximal peaks positions. The difference is always a positive value.
• RATIO_MAX_MAX: The ratio between the maximal peaks values. The larger value is always divided by the smaller value. NA if minimal threshold is not respected.
• RATIO_INTERSECT: The ratio between the intersection area and the total area. NA if minimal threshold is not respected.

The package can be installed in command line mode, once the source code has been downloaded:

R CMD INSTALL similaRpeak_0.99.0.tar.gz

or by the RStudio menu option:

Tools>Install Packages > Select "Package Archive File"