diff --git a/README.md b/README.md index fd79eb0..98c264a 100644 --- a/README.md +++ b/README.md @@ -9,7 +9,7 @@ Task include: ## Version Change log 1.2.3 -- Add new '--extract-ref-flanks' option for AssemblyMapper, which allow chimeric contig output for gap filling. (see issue #42 for detail) +- Add new '--extract-ref-flanks' option for AssemblyMapper, which allow chimeric contig output for gap filling. (see [issue #42](https://github.com/aaranyue/quarTeT/issues/42) for detail) - Support Unimap as aligner. As a optimized version of minimap2, it still use the '--minimapoption'. - Fix a bug that monopolizer contig length standard is too high. - Deprecate the web server for maintenance issue (sorry!). @@ -35,7 +35,7 @@ Task include: - Support RepeatMasker's TE annotation format for CentroMiner module. 1.1.6 -- add new option 'maximum TR length' (-r) for CentroMiner to avoid trf stuck. (Thanks to atotickov, PR #22) +- add new option 'maximum TR length' (-r) for CentroMiner to avoid trf stuck. (Thanks to atotickov, [PR #22](https://github.com/aaranyue/quarTeT/pull/22)) - disable unstable 'join' mode for GapFiller by default. Use '--enablejoin' option to enable this mode. '--fillonly' option is removed. 1.1.5