Update README.md

README.md

@@ -1,6 +1,6 @@
 NAME
 ====
-fatool
+FA_TOOL
 
 VERSION
 =======
@@ -10,6 +10,8 @@ VERSION
 LICENSE
 =======
 
+Specified in LICENSE.md file
+
 INTRODUCTION
 ============
 
@@ -36,22 +38,22 @@ facutter commands:
   {cut,extractNames,extractContigs,remContigs,join,split} each has own params
   
     cut                 split supplied sequence into smaller parts, according to given params
-    extractNames        extracting contigs names only
-    extractContigs      extracting contigs specified in file (output in new file)
+    extractNames        extracting contigs names only into list txt file
+    extractContigs      extracting contigs specified in file based on contigs names list (output in new file)
     join                joining two or more files, yet not verifing duplicates
-    remContigs          removing contigs specified in file (output in new file)
+    remContigs          removing contigs specified in file based on contigs names list (output in new file)
     split               each cotig saved into separate file
   
 cut:
   
   usage: fatool.py cut [-h] -r RANGE [-o OUTPUT] [-s STEP] [--log LOG]
 
   optional arguments:
-  -h, --help            show this help message and exit
-  -r RANGE, --range RANGE	cutted sequence length
+  -h, --help                  show this help message and exit
+  -r RANGE, --range RANGE	    cutted sequence length
   -o OUTPUT, --output OUTPUT	output file default: output.fa
-  -s STEP, --step STEP  step length default: 1
-  --log LOG             log file if not supplied stdout
+  -s STEP, --step STEP        step length default: 1
+  --log LOG                   log file if not supplied stdout
   
 extractContigs:
   
@@ -99,4 +101,4 @@ split:
 
   optional arguments:
   -h, --help                show this help message and exit
-  -d OUTPUTDIR, --outputDir output directory where splited contigs will be saved
+  -d OUTPUTDIR, --outputDir output directory where splited contigs will be saved