diff --git a/README.md b/README.md index c3d93d4..c7f9539 100644 --- a/README.md +++ b/README.md @@ -7,18 +7,23 @@ methylation features, such as hypo-methylated regions (HMR), partially methylated domains (PMD), hyper-methylated regions (HyperMR), and allele-specific methylated regions (AMR). -Release 4.1.2 +Release 5.0.0 =================== -This is a pre-release in preparation for the transition to using SAM files by -default. This pre-release no longer supports `mr` files, which means that the +This new release no longer supports `mr` files, which means that the `to-mr` program has been eliminated and replaced by a program called -`format_reads`, which merges mates in paired-end SAM files, also converting -them to a standardized SAM format depending on the mapper it originates from. -Additionally, the `htslib` library is now required, and instructions to install -it in different environments are discussed bellow - -## Installing release 4.1.2 +`format_reads`, which merges mates in paired-end SAM files, also +converting them to a standardized SAM format depending on the mapper +it originates from. Additionally, the `htslib` library is now +required, and instructions to install it in different environments are +discussed below. + +If working with MR files is necessary for your analysis, we refer +users to methpipe version [4.1.1](https://github.com/smithlabcode/methpipe/releases/tag/v4.1.1), +which is the last release that contains programs that take MR as +input. + +## Installing release 5.0.0 ### Required libraries