Utility functions for manipulating chromosomal regions.
Utility functions for manipulating chromosomal regions.
(complement-regions base-region)(complement-regions base-region in-regions)Returns a sequence of regions complement to in-regions. in-regions must be sorted. Returns a stateful transducer when no regions provided.
Returns a sequence of regions complement to in-regions. in-regions must be sorted. Returns a stateful transducer when no regions provided.
(divide-refs refs step)Divides refs into several chunks with maximum length 'step'. Returns a lazy sequence of map containing {:chr :start :end}.
Divides refs into several chunks with maximum length 'step'.
Returns a lazy sequence of map containing {:chr :start :end}.(divide-region start end step)Divides a region [start end] into several chunks with maximum length 'step'. Returns a lazy sequence of vector.
Divides a region [start end] into several chunks with maximum length 'step'. Returns a lazy sequence of vector.
(format-region {:keys [chr start end]})Format a region map into a string.
Format a region map into a string.
(format-region-strict region-map)Format a region map into a string strictly.
Format a region map into a string strictly.
(merge-regions)(merge-regions max-gap)(merge-regions max-gap regions)Same as 'merge-regions-with' except for 'merge-two-regions' is partially applied as merge-fn.
Same as 'merge-regions-with' except for 'merge-two-regions' is partially applied as merge-fn.
(merge-regions-with merge-fn)(merge-regions-with merge-fn max-gap)(merge-regions-with merge-fn max-gap regs)Returns a lazy sequence of merged regions. Input regions must be sorted. Neighboring regions apart less than or equal to 'max-gap' will be merged with 'merge-fn'. Returns a stateful transducer when no input 'regions' is provided.
Returns a lazy sequence of merged regions. Input regions must be sorted. Neighboring regions apart less than or equal to 'max-gap' will be merged with 'merge-fn'. Returns a stateful transducer when no input 'regions' is provided.
(overlapped-regions? {x-start :start x-end :end x-chr :chr}
{y-start :start y-end :end y-chr :chr})Returns true if two regions are overlapped with each other.
Returns true if two regions are overlapped with each other.
(parse-region region-str)Parse a region string into a map.
Parse a region string into a map.
(parse-region-strict region-str)Parse a region string into a map strictly.
Parse a region string into a map strictly.
(subtract-region lhs-reg
{rhs-reg-start :start rhs-reg-end :end rhs-reg-chr :chr})Subtract a region from another one. Returns a vector of regions.
Subtract a region from another one. Returns a vector of regions.
(valid-region? {:keys [chr start end]})Checks if the given region map is a valid 1-based closed range.
Checks if the given region map is a valid 1-based closed range.
(valid-rname? rname)Checks if the given rname conforms to the spec of sam.
Checks if the given rname conforms to the spec of sam.
cljdoc builds & hosts documentation for Clojure/Script libraries
| Ctrl+k | Jump to recent docs |
| ← | Move to previous article |
| → | Move to next article |
| Ctrl+/ | Jump to the search field |