-Beta release 0.1.11 (19 November, 2010)
+Beta release 0.1.11 (21 November, 2010)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
-This is a bug fix release:
+This is mainly a bug fix release:
* Fixed a bug in random retrieval (since 0.1.8). It occurs when reads
are retrieved from a small region containing no reads.
* Improved fault tolerence in remote access.
+One minor feature has been implemented in bcftools:
+
+ * Added a reference-free variant calling mode. In this mode, a site is
+ regarded as a variat iff the sample(s) contains two or more alleles;
+ the meaning of the QUAL field in the VCF output is changed
+ accordingly. Effectively, the reference allele is irrelevant to the
+ result in the new mode, although the reference sequence has to be
+ used in realignment when SAMtools computes genotype likelihoods.
+
In addition, since 0.1.10, the `pileup' command has been deprecated by
`mpileup' which is more powerful and more accurate. The `pileup' command
will not be removed in the next few releases, but new features will not
be added.
-(0.1.11: 19 November 2010, r842)
+(0.1.11: 21 November 2010, r851)