NEWS

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r3Cseq 1.29.0 (2018-12-08)

• migrated all codes to support the BioC3.9! This is because the BioC3.9 will not anymore support the 'RangedData' which is mainly used by r3Cseq in the previous versions.

r3Cseq 1.13.1 (2015-01-26)

• fixed the bugs in function "export3Cseq2bedGraph"
• fixed the bugs in function "getViewpoint"
• fixed the bugs in function "export3CseqRawReads2bedGraph"
• added "mm10" and "rn5" genomes into the package

r3Cseq 1.9.2 (2013-11-11)

• fixed the bugs in function getFragmentsPerWindow for "overlapping window"

r3Cseq 1.9.1 (2013-10-21)

• added the yLim input parameter of plotInteractionsNearViewpoint
• added the log2 cutoff ratio for the function plotInteractionsNearViewpoint
• fixed the shift of interaction in the viewpoint chromosome found in the function getFragmentsPerWindow
• fixed the missing input parameter for the function getBatchReadCountPerWindow
• fixed the class of r3CseqInBatch

r3Cseq 1.5.0 (2012-10-25)

• added the new normalization method of 3C-seq analysis
• added the new statistical analysis for identification of 3C-seq interaction regions
• added the analysis for both restriction fragment and a user defined non-overlapping window
• added the analysis for 3C-seq data with replicates
• added the new visualization "domainograms"
• updated the existing plots
• update the exported methods
• added the options for counting reads per regions
• fixed the bug of counting reads per regions
• updated the vignette