diff --git a/README b/README index 83c918c..3a06a25 100644 --- a/README +++ b/README @@ -22,7 +22,7 @@ java -jar /path/to/dist/SequenceMatch.jar train ref.fa ref_seqmatch 2. Find the K nearest neighbor -This is the main step to fins k nearest neighbor reference sequences for each query sequence. The reference sequences can be plain FASTA file, or a output trainee file, or a directory containing multiple trainee files created from the above step 1. The output lists the best k results for each query in the following five columns: +This is the main step to find k nearest neighbor reference sequences for each query sequence. The reference sequences can be plain FASTA file, or a output trainee file, or a directory containing multiple trainee files created from the above step 1. The output lists the best k results for each query in the following five columns: query name match seq orientation S_ab score unique common oligomers S_ab indicates the number of (unique) 7-base oligomers shared between query sequence and a match sequence divided by the lowest number of unique oligos in either of the two sequences.