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-o defines the out file which and has the STDOUT set as the default.
-o defines the out file which and has the STDOUT set as the default.
You may modify the STDOUT to output the binary version of the format.
You may modify the STDOUT to output the binary version of the format.
== Uncompressed BCF streams ==
htslib is designed with BCF as the underlying data structure and it has incorporated
awareness of uncompressed BCF streams in the i/o API. One may use this feature to
stream uncompressed BCF records to save on computational time.
#using textual VCF streams indicated by -
cat mills.vcf | vt normalize - -r hs37d5.fa | vt mergedups - -o out.bcf
#using uncompressed BCF streams indicated by +
cat mills.vcf | vt normalize - -r hs37d5.fa -o + | vt mergedups + -o out.bcf
In this example, the former took 0.84s while the latter took 0.64s to process. (24% speed up!)
== Alternate headers ==
== Alternate headers ==
