the total number of reads considered.
the total number of reads mapping to an ERCC transcript.
the fraction of total reads that map to an ERCC transcript.
the total number of read pairs (or single end reads) mapping to an ERCC transcript.
the total number of ERCC transcripts with at least one read observed.
the total number of ERCC transcripts with at least the user-set minimum # of reads observed.
Pearson's correlation coefficient for correlation of concentration and normalized counts.
Spearman's correlation coefficient for correlation of concentration and normalized counts.
the intercept of the linear regression.
the slope of the linear regression.
the r-squared of the linear regression.
Gets the value of the field by name.
Gets the value of the field by name.
the total number of reads mapping to an ERCC transcript.
the total number of read pairs (or single end reads) mapping to an ERCC transcript.
Override this method to customize how values are formatted.
Override this method to customize how values are formatted.
the fraction of total reads that map to an ERCC transcript.
Gets the value of the field by name, returns None if it does not exist.
Gets the value of the field by name, returns None if it does not exist.
the intercept of the linear regression.
Gets an iterator over the fileds of this metric in the order they were defined.
Gets an iterator over the fileds of this metric in the order they were defined. Returns tuples of names and values
Get the names of the arguments in the order they were defined.
Get the names of the arguments in the order they were defined.
the total number of ERCC transcripts with at least the user-set minimum # of reads observed.
Pearson's correlation coefficient for correlation of concentration and normalized counts.
the r-squared of the linear regression.
(Changed in version 2.9.0) The behavior of scanRight
has changed. The previous behavior can be reproduced with scanRight.reverse.
the slope of the linear regression.
Spearman's correlation coefficient for correlation of concentration and normalized counts.
the total number of reads considered.
the total number of ERCC transcripts with at least one read observed.
(Changed in version 2.9.0) transpose
throws an IllegalArgumentException
if collections are not uniformly sized.
Get the values of the arguments in the order they were defined.
Get the values of the arguments in the order they were defined.
(erccSummaryMetrics: MonadOps[(String, String)]).filter(p)
(erccSummaryMetrics: MonadOps[(String, String)]).flatMap(f)
(erccSummaryMetrics: MonadOps[(String, String)]).map(f)
(erccSummaryMetrics: MonadOps[(String, String)]).withFilter(p)
Metrics produced by
CollectErccMetrics
describing various summary metrics related to the spike-in of ERCC (External RNA Controls Consortium) into an RNA-Seq experiment.The correlation coefficients and linear regression are calculated based on the log2 observed read pair count normalized by ERCC transcript length versus the log2 expected concentration.
the total number of reads considered.
the total number of reads mapping to an ERCC transcript.
the fraction of total reads that map to an ERCC transcript.
the total number of read pairs (or single end reads) mapping to an ERCC transcript.
the total number of ERCC transcripts with at least one read observed.
the total number of ERCC transcripts with at least the user-set minimum # of reads observed.
Pearson's correlation coefficient for correlation of concentration and normalized counts.
Spearman's correlation coefficient for correlation of concentration and normalized counts.
the intercept of the linear regression.
the slope of the linear regression.
the r-squared of the linear regression.