calculateBatchRPM
(Package: r3Cseq) :
calculate read per million (RPM) for replicates analysis
Normalize 3C-Seq data by transforming raw reads to read per million per each region for replication analysis
● Data Source:
BioConductor
● Keywords:
● Alias: calculateBatchRPM, calculateBatchRPM,r3CseqInBatch-method
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calculateRPM
(Package: r3Cseq) :
calculate read per million (RPM)
Normalize 3C-Seq data by transforming raw reads to read per million per each region
● Data Source:
BioConductor
● Keywords:
● Alias: calculateRPM, calculateRPM,r3Cseq-method
●
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contrCoverage
(Package: r3Cseq) :
This method has been removed.
This method has been removed.
● Data Source:
BioConductor
● Keywords:
● Alias: contrCoverage, contrCoverage,r3Cseq-method
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get all identified interaction regions from the control
● Data Source:
BioConductor
● Keywords:
● Alias: contrInteractionRegions, contrInteractionRegions,r3CseqCommon-method
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contrRPM
(Package: r3Cseq) :
get read per million (RPM) for the control
get the normalized 3C-seq data (RPM) for the control
● Data Source:
BioConductor
● Keywords:
● Alias: contrRPM, contrRPM,r3CseqCommon-method
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contrRawData
(Package: r3Cseq) :
Accessors for the 'contrRawData' slot of a r3Cseq object.
The 'contrRawData' slot of hold the raw aligned reads data in the GRanges object.
● Data Source:
BioConductor
● Keywords:
● Alias: contrRawData, contrRawData,r3Cseq-method, contrRawData<-, contrRawData<-,r3Cseq-method
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contrReadCount
(Package: r3Cseq) :
get read count per region for the control
get the read count per region for the control
● Data Source:
BioConductor
● Keywords:
● Alias: contrReadCount, contrReadCount,r3CseqCommon-method
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expCoverage
(Package: r3Cseq) :
This method has been removed.
This method has been removed.
● Data Source:
BioConductor
● Keywords:
● Alias: expCoverage, expCoverage,r3Cseq-method
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expInteractionRegions
(Package: r3Cseq) :
get interaction regions from the experiment
get identified interaction regions from the experiment
● Data Source:
BioConductor
● Keywords:
● Alias: expInteractionRegions, expInteractionRegions,r3CseqCommon-method
●
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expRPM
(Package: r3Cseq) :
get read per million (RPM) for the experiment
get the normalized 3C-seq data (RPM) for the experiment
● Data Source:
BioConductor
● Keywords:
● Alias: expRPM, expRPM,r3CseqCommon-method
●
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