diff --git a/README.md b/README.md index 95d55a0..b10c74e 100644 --- a/README.md +++ b/README.md @@ -13,13 +13,24 @@ the primary assembly step to get near-identical results in far less time. ## Main steps -1. Correct reads conservatively +1. Estimate genome size and read length distribution from reads (SOON) +2. Correct reads conservatively 2. Pre-overlap paired-end reads -3. Assemble with "vanilla" SPAdes with modified kmer range -4. Correct minor assembly errors (optional) +3. Assemble with "vanilla" SPAdes with modified kmer range and PE + long SE reads +5. Use contigs not scaffolds +4. Correct minor assembly errors (SOON) ## Installation +### Homebrew + +``` +brew tap homebrew/science +brew install shovill +``` +Using Homebrew will install all the dependencies for you: +[Linux](http://linuxbrew.sh) or [MacOS](http://brew.sh) + ### Source ``` @@ -35,17 +46,6 @@ You will need to install all the dependencies manually: * PILON * KmerStream -### Homebrew - -**NOT READY YET** - -``` -brew tap homebrew/science -brew tap tseemann/bioinformatics-linux -brew install shovill -``` -Using Homebrew will install all the dependencies for you. - ## Feedback Please file questions, bugs or ideas to the [Issue Tracker](https://github.com/tseemann/shovill/issues) @@ -60,9 +60,8 @@ Not published yet. ## Authors -* Torsten Seemann +* *Torsten Seemann* * Jason Kwong * Anders Goncalves da Silva * Mark Schultz * Dieter Bulach -