@param idx Index
@param hdr Header
@param regarray Array of ref:interval region specifiers
@param regcount Number of items in regarray
Each @p regarray entry is parsed by hts_parse_reg(), and takes one of the
following forms:
region | Outputs
REF: | All reads with RNAME REF
REF:START | Reads with RNAME REF overlapping START to end of REF
REF:-END | Reads with RNAME REF overlapping start of REF to END
REF:START-END | Reads with RNAME REF overlapping START to END
. | All reads from the start of the file
| Unmapped reads at the end of the file (RNAME '*' in SAM)
The form REF: should be used when the reference name itself contains a colon.
The iterator will return all reads overlapping the given regions. If a read
overlaps more than one region, it will only be returned once.
@param idx Index @param hdr Header @param regarray Array of ref:interval region specifiers @param regcount Number of items in regarray
Each @p regarray entry is parsed by hts_parse_reg(), and takes one of the following forms:
region | Outputs
REF: | All reads with RNAME REF REF:START | Reads with RNAME REF overlapping START to end of REF REF:-END | Reads with RNAME REF overlapping start of REF to END REF:START-END | Reads with RNAME REF overlapping START to END . | All reads from the start of the file | Unmapped reads at the end of the file (RNAME '*' in SAM)
The form REF: should be used when the reference name itself contains a colon.
The iterator will return all reads overlapping the given regions. If a read overlaps more than one region, it will only be returned once.