From 3067fcb7b8863a58e836b1731837e7dc8a0b6f2d Mon Sep 17 00:00:00 2001 From: Calvin Morrison Date: Mon, 20 Jan 2014 14:06:34 -0500 Subject: add fg and bg to README --- README.md | 4 +++- 1 file changed, 3 insertions(+), 1 deletion(-) diff --git a/README.md b/README.md index e491351..3c49753 100644 --- a/README.md +++ b/README.md @@ -37,10 +37,12 @@ Y | min_mer_range | 6 | minimum mer size to use Y | max_mer_range | 10 | maximum mer size to use Y | max_mer_distance | 5000 | maximum distance between mers in foreground N | output_directory | $PWD/$foreground_$background/ | ex. if fg is Bacillus.fasta and bg is HumanGenome.fasta then folder would be $PWD/Bacillus.fasta_HumanGenome_output.fasta/ -Y | counts_directory | $output_directory/.counts | directory for counts directory +Y | counts_directory | $output_directory/.tmp | directory for counts directory Y | tmp_directory=$output_directory/.tmp | temporary files directory Y | max_melting_temp | 30° | maximum melting temp of mers Y | min_melting_temp | 0° | minimum melting temp of mers Y | min_mer_count | Not Enabled (0) | only select mers that occur more frequently than this number Y | max_select | maximum number of mers to pick Y | ignore_mers | Not Enabled | mers to explicitly ignore, space seperated ex. ignore_mers="ACAGTA ACCATAA ATATATAT" +Y | foreground | path of foreground file +Y | background | path of background file -- cgit v1.2.3