diff --git a/docs/content/parsnp/quickstart.rst b/docs/content/parsnp/quickstart.rst index cc7f473..7c2d1ff 100644 --- a/docs/content/parsnp/quickstart.rst +++ b/docs/content/parsnp/quickstart.rst @@ -48,7 +48,7 @@ Parsnp quick start for three example scenarios. With reference & genbank file:: - parsnp -g -d -p + parsnp -g -d -p NOTE: @@ -72,7 +72,7 @@ Input/output:: -c = : (c)urated genome directory, use all genomes in dir and ignore MUMi? (default = NO) -d = : (d)irectory containing genomes/contigs/scaffolds - -g = : Gen(b)ank file(s) (gbk), comma separated list (default = None) + -g = : Gen(b)ank file(s) (gbk), comma separated list for each replicon (default = None) -o = : output directory? default [./P_CURRDATE_CURRTIME] -q = : (optional) specify (assembled) query genome to use, in addition to genomes found in genome dir (default = NONE) -r = : (r)eference genome (set to ! to pick random one from genome dir)