Changes

From Genome Analysis Wiki
Jump to navigationJump to search

Haploxt (view source)

Revision as of 13:31, 21 October 2010

369 bytes added ,  13:31, 21 October 2010
no edit summary
Line 3: Line 3:  
= Input Files  =
 
= Input Files  =
   −
== Required ==
+
== Required Input ==
    
=== Haplotype File  ===
 
=== Haplotype File  ===
   −
The input haplotype file is in the form of one haplotype per line (no delimiter between alleles). The file could contain fields other than the actual haplotypes but must proceed the actual haplotype field.<br><br>  
+
Fed to the option --haps or -h, the input haplotype file is in the form of one haplotype per line (no delimiter between alleles). The file could contain fields other than the actual haplotypes but must proceed the actual haplotype field. Allele coding is flexible: accepted coding includes 1234, ACGT, 12, AB etc. <br><br>  
    
Sample haplotype file 1:<br>  
 
Sample haplotype file 1:<br>  
Line 20: Line 20:  
144224441221443323334331431243131232311321123323432321334412<br>  
 
144224441221443323334331431243131232311321123323432321334412<br>  
 
342222444221344312343433333122313344113321324223112323334412<br>
 
342222444221344312343433333122313344113321324223112323334412<br>
 +
 +
=== SNP File ===
 +
 +
Fed to the option --snps or -s, the input SNP file is a list of SNP name in the same order as in the haplotype file. One SNP per line. <br> <br>
 +
 +
Sample SNP file: <br>
 +
SNP1<br>
 +
SNP2<br>
 +
SNP3<br>
 +
...<br> <br>
 +
 +
== Optional Input ==
 +
===
 +
    
= Options  =
 
= Options  =
Ylwtx
212

edits

Retrieved from "http://genome.sph.umich.edu/wiki/Special:MobileDiff/2275"

Navigation menu