NEWS

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idr2d 1.14.0

• Bioconductor 3.17 release

idr2d 1.12.0

• Bioconductor 3.16 release

idr2d 1.10.0

• Bioconductor 3.15 release

idr2d 1.8.1

• added grid to Imports
• fixed citation
• updated DOI

idr2d 1.8.0

• Bioconductor 3.14 release

idr2d 1.6.0

• Bioconductor 3.13 release

idr2d 1.4.0

• Bioconductor 3.12 release

idr2d 1.2.2

• skipped Python-dependent tests on i386 systems (64-bit version of Python is required)

idr2d 1.2.0

• added blue background to IDR distribution histograms
• updated roxygen2 version to 7.1.0
• added unit tests

idr2d 1.0.4

• changed max_gap default value from 0 to -1 to conform with convention
• updated reference to IDR2D publication

idr2d 1.0.3

• added option to disable jitter
• added min_value and max_value parameters to estimate_idr2d_hic
• fix block size display for draw_hic_contact_map

idr2d 1.0.2

• added parser for HiC-Pro contact maps (.matrix and .bed files)
• added function to visualize contact maps, showing only reproducible blocks

idr2d 1.0.1

• fixed alpha level in rank and value scatterplots
• bold font face for axis and legend titles

idr2d 1.0.0

• added HiC code example
• added summary statistics to IDR1D, IDR2D, IDR2D HiC results
• added summary calls to vignettes
• added alpha parameter to control transparency

idr2d 0.99.7

• refactored HiC code

idr2d 0.99.6

• added optional log scale axes to plotting functions
• added error handling
• adjusted log messages
• added log_idr argument
• added min value / max value filtering
• mentioned typical HiC resolutions

idr2d 0.99.5

• fixed minor code formatting and function documentation issues
• changed function names from lower camel case to snake case
• updated reference in vignettes
• replaced dots in variable names with underscores
• added HiC functionality

idr2d 0.99.4

• fixed issue with non-standard column names
• added examples to function documentation

idr2d 0.99.3

• added max.points.shown parameter

idr2d 0.99.2

• added consistent ticks and limits to IDR plot functions
• updated function documentation

idr2d 0.99.1

• added reference to Li et al. paper
• added diagnostics plots
• changed rank order
• added IDR1D functionality
• fixed local / global IDR issue

idr2d 0.99.0

• initial release