diff --git a/doco/Running_DecentTree.md b/doco/Running_DecentTree.md index 09c1efa..ccb7ff2 100644 --- a/doco/Running_DecentTree.md +++ b/doco/Running_DecentTree.md @@ -1,4 +1,19 @@

Running decenttree

+ +This is an example of how to run decenttree with Neighbor Joining algorithm. Other algorithms can be found in https://github.com/iqtree/decenttree/blob/master/doco/Algorithms.md. + +If the input file is in multiple sequence alignment format (.fasta, can be compressed) + +``` +decentTree -fasta $inputFile -t NJ -out $outputFile +``` + +If the input file is in distance matrix format + +``` +decentTree -in $inputFile -t NJ -out $outputFile +``` +

Command-line options

| Option | Argument | Description |