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Fix some typos in igvtools_readme, add samtools link

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1 parent 1f4a26e commit d66a3000605e3d52f8e2f7477c452bb5e46bfe2b @jsilter jsilter committed Feb 5, 2013
Showing with 3 additions and 3 deletions.
  1. +3 −3 docs/igvtools_readme.txt
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@@ -64,7 +64,7 @@ COMMANDS
The recognized commands are tile, count, sort, and index. Note that these
utilities are for working with ascii file formats, including SAM, but
-do not work with BAM files. For manipulating BAM files use samtools.
+do not work with BAM files. For manipulating BAM files use samtools (http://samtools.sourceforge.net/).
---------------------------------------------------------------------------
Command "tile"
@@ -144,7 +144,7 @@ Example:
Notes:
Data file formats, with the exception of .gct files, must be sorted by
-start position. If neccessary files can be sorted with the "sort" command
+start position. If necessary files can be sorted with the "sort" command
described below. Attempting to preprocess an unsorted file will result
in an error.
@@ -201,7 +201,7 @@ Options:
--strands [arg] By default, counting is combined among both strands.
This setting outputs the count for each strand separately.
Legal argument values are 'read' or 'first'.
- 'read' Separates count by 'read' strand, 'first' uses the first in pair strand".
+ 'read' Separates count by 'read' strand, 'first' uses the first in pair strand.
Results are saved in a separate column for .wig output, and a separate track
for TDF output.

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