Liking cljdoc? Tell your friends :D

cljam.io.sam.util.option

Utility functions for SAM optional fields.

Utility functions for SAM optional fields.
raw docstring

alternative-hitsclj

(alternative-hits aln)

List of alternative alignments.

List of alternative alignments.
sourceraw docstring

barcodeclj

(barcode aln)

Barcode sequence.

Barcode sequence.
sourceraw docstring

edit-distanceclj

(edit-distance aln)

Edit distance from reference of the alignment.

Edit distance from reference of the alignment.
sourceraw docstring

mate-cigarclj

(mate-cigar aln)

CIGAR string of the mate alignment.

CIGAR string of the mate alignment.
sourceraw docstring

mismatching-positionsclj

(mismatching-positions aln)

Mismatching positions and bases of the alignment.

Mismatching positions and bases of the alignment.
sourceraw docstring

parse-alternative-hits-strclj

(parse-alternative-hits-str s)

Parse serialized supplementary alignments.

Parse serialized supplementary alignments.
sourceraw docstring

parse-mismatching-positions-strclj

(parse-mismatching-positions-str s)

Parse mismatching positions in the SAM optional fields. Returns a sequence consisting of vectors which are one of [:match matching-length], [:mismatch a-reference-base-char] and [:deletion reference-bases-string].

Parse mismatching positions in the SAM optional fields. Returns a sequence
consisting of vectors which are one of [:match matching-length],
[:mismatch a-reference-base-char] and [:deletion reference-bases-string].
sourceraw docstring

parse-optional-fieldclj

(parse-optional-field op)
source

parse-supplementary-alignments-strclj

(parse-supplementary-alignments-str s)

Parse serialized supplementary alignments.

Parse serialized supplementary alignments.
sourceraw docstring

primary-to-alt-scoreclj

(primary-to-alt-score aln)

Ratio of the primary alignment score and the alternative one.

Ratio of the primary alignment score and the alternative one.
sourceraw docstring

read-groupclj

(read-group aln)

Name of read group of the alignment.

Name of read group of the alignment.
sourceraw docstring

ref-commentclj

(ref-comment aln)

Comment of reference sequence.

Comment of reference sequence.
sourceraw docstring

scoreclj

(score aln)

Score of the alignment.

Score of the alignment.
sourceraw docstring

stringify-optional-fieldsclj

(stringify-optional-fields options)
source

suboptimal-scoreclj

(suboptimal-score aln)

Suboptimal alignment score.

Suboptimal alignment score.
sourceraw docstring

supplementary-alignmentsclj

(supplementary-alignments aln)

List of supplementary alignments.

List of supplementary alignments.
sourceraw docstring

value-for-tagclj

(value-for-tag tag aln)
source

cljdoc is a website building & hosting documentation for Clojure/Script libraries

× close