Hi everyone
I have a BlastNT.xml file and I tried to perform KEGG and Seed analysis using the kegg and seed mapping files gi2kegg-Aug2016X-ue.bin, gi2seed.map respectively. Since It Is a BlastNT file there is no Ref SEQ Id. I used the GI id.
Setting Min score as 50, Min support 1 and LCA percent 100, I ran the Megan 5 Software. But all I could find after the run was "no hits" and "not assigned" for both Kegg and seed analysis.
Anyone please help me out. I am a newuser of Megan.
Below is the file contents of my BlastNT.xml file <hit_num>1</hit_num> <hit_id>gi|209529865|gb|CP001189.1|</hit_id> <hit_def>Gluconacetobacter diazotrophicus PAl 5, complete genome</hit_def> <hit_accession>CP001189</hit_accession> <hit_len>3887492</hit_len> <hit_hsps> <hsp>
Thanks in advance!
0 answers
No answers yet.
Log in to answer this question.
-
Understanding a blast output
written by carolina.santiago.t •
-
Understanding a blast output
written by carolina.santiago.t •
-
NCBIXML parser get hit sequence
written by yarmda •
-
help understanding .xml blast output
written by ashish
-
How to simply filter a xml file?
written by vmicrobio
-
How to converts output from rpsblast XML format to CSV format?
written by casley_queiroz •
-
Missing HSPs from Blast xml output
written by alissamariewilliams2015 •
-
Extracting the <Hit_def> from Blast xml output using Biopython and saving in .csv
written by Anushka •
-
Parsing Blasp Output
written by Khaleel •
-
Bash Script To Filter Blast Xml Output
written by Vang •
I did not try using
.xmlfile. I useddiamondto searching reads againstnrdatabase and used the.daafiles.Megan 5 is old. Try the new Megan community version.
Make sure you chose the right mapping file (e.g., gi2kegg) at the right place (not accesion) on the seed/kegg tabs.