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--- mkatari-bioinformatics-august-2013-blastnotes [2014/07/11 09:03] – mkatari
+++ mkatari-bioinformatics-august-2013-blastnotes [2014/10/23 19:58] – mkatari
@@ Line 1: / Line 1: @@
 [[mkatari-bioinformatics-august-2013|Back to Manny's Bioinformatics Workshop Home]]
+This page contains a short introduction on how to create a Blast database and also how to run Blast using a query. Please replace your sequences with the names provided for the scripts to work for you.
+**Please remember** --- if you are planning to run Blast on command line, please do it in **interactive** mode. The recommended approach is to use sbatch scripts (described in more detail further down the page).
 ====== Getting specific fasta sequences from reference file ======
@@ Line 129: / Line 133: @@
 # the different columns in this output format are :
-# Fields: query id, subject id, % identity, alignment length, mismatches, gap opens, query start, query end, subject start, subject end, evalue, bit score
+# Fields: query id,
+          subject id,
+          % identity,
+          alignment length,
+          mismatches,
+          gap opens,
+          query start,
+          query end,
+          subject start,
+          subject end,
+          evalue,
+          bit score
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