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updated readme

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1 parent fb24030 commit 0e3a4f10449f00ffc8d5d475381d8f4db8710f62 @audy committed May 1, 2012
Showing with 11 additions and 2 deletions.
  1. +11 −2 readme.md
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@@ -4,13 +4,22 @@ Cluster raw Illumina 16S rRNA amplicon data to generate OTUs. Use at your own ri
## How do I get Lederhosen?
-0. Obtain & Install uclust (64-bit)
-1. `sudo gem install lederhosen`
+0. Obtain & Install [UCLUST](http://www.drive5.com/) (64-bit)
+1. Obtain & Install [BLAT](http://genome.ucsc.edu/FAQ/FAQblat.html#blat3)
+2. Get a copy of [TaxCollector](http://github.com/audy/taxcollector)
+3. Install Lederhosen by typing:
+
+ `sudo gem install lederhosen`
+4. Check installation by typing `lederhosen`. You should see some help text.
## How do I use Lederhosen?
Type `lederhosen help` for complete instructions
+### 0. Pipeline
+
+(TODO)
+
### 1. Trim raw reads
`$ lederhosen trim --reads-dir=reads-dir/*.txt --out-dir=trimmed`

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