#Htsjdk.samtools.filter Classes and Interfaces

_{#Htsjdk.samtools.filter Classes and Interfaces - 19 results found.}

Name	Description	Type	Package	Framework
AbstractJavascriptFilter	Javascript filter with HEADER type containing TYPE records.	Class	htsjdk.samtools.filter	HtsJDK
AggregateFilter		Class	htsjdk.samtools.filter	HtsJDK
AlignedFilter		Class	htsjdk.samtools.filter	HtsJDK
DuplicateReadFilter		Class	htsjdk.samtools.filter	HtsJDK
FailsVendorReadQualityFilter		Class	htsjdk.samtools.filter	HtsJDK
FilteringIterator	Filtering Iterator which takes a filter and an iterator and iterates through only those records which are not rejected by the filter.	Class	htsjdk.samtools.filter	HtsJDK
InsertSizeFilter	Filter things that fall outside a specified range of insert sizes.	Class	htsjdk.samtools.filter	HtsJDK
IntervalFilter	Filter SAMRecords so that only those that overlap the given list of intervals.	Class	htsjdk.samtools.filter	HtsJDK
JavascriptSamRecordFilter	javascript based read filter The script puts the following variables in the script context:	Class	htsjdk.samtools.filter	HtsJDK
MappingQualityFilter	Filter things with low mapping quality.	Class	htsjdk.samtools.filter	HtsJDK
NotPrimaryAlignmentFilter		Class	htsjdk.samtools.filter	HtsJDK
OverclippedReadFilter	Filters out reads with very few unclipped bases, likely due to the read coming from a foreign organism, e.	Class	htsjdk.samtools.filter	HtsJDK
ReadNameFilter		Class	htsjdk.samtools.filter	HtsJDK
SamRecordFilter	API for filtering SAMRecordsDetermines whether a SAMRecord matches this filter	Interface	htsjdk.samtools.filter	HtsJDK
SecondaryAlignmentFilter	SamRecordFilter that filters out secondary alignments, but not supplemental alignments.	Class	htsjdk.samtools.filter	HtsJDK
SecondaryOrSupplementaryFilter	Filter out SAMRecords with NotPrimaryAlignment or Supplementary flag set This class should be viewed as a replacement for NotPrimarySkippingIterator,	Class	htsjdk.samtools.filter	HtsJDK
SolexaNoiseFilter	Filter to determine whether a read is "noisy" due to a poly-A run that is a sequencing artifact.	Class	htsjdk.samtools.filter	HtsJDK
TagFilter		Class	htsjdk.samtools.filter	HtsJDK
WholeReadClippedFilter	Filter SAMRecords so that only those that have at least one un-clipped base areAuthor:ktibbett@broadinstitute.	Class	htsjdk.samtools.filter	HtsJDK

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