Reference-free variant calling on a Bacterial population
I have with me 100 Ecoli strains and I would like to perform reference-free variant calling. I would like to use the De-Bruijn graph method to go about it. Which tool would be the best to go about it? I have gone through Cortex, which I feel shall help. But I am a little lost with how to begin. The manual is descriptive, but it has too much information and it is a little overwhelming for a beginner like me. Any suggestions in this regard will help :)
• 564 views
•
link
written
by
srividhyasainath2 •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Forum: Advice on Entering the field of Bioinformatics in Canada
written by ubhimanpreet •
-
Sclerotinia sclerotiorum
written by lesquivel1991 •
-
Pilon software installation
written by bioramg •
-
How can I analyse NGS data of microbiome (For beginner)?
written by Sequencer •
-
Data analysis using statistics
written by sharmatina189059 •
-
de bruijn graph for paired end reads
written by Star70 •
-
What is the future of De-bruijn graph based assemblers?
written by saranpons3
-
Is De-Bruijn graph only the best approach for assembling short reads from 2nd generation sequencing…
written by saranpons3
-
Need help in assigning COG categories
written by rajgg9 •
-
Existing Tools For Building A De Bruijn Graph From Raw Reads
written by Tianyang Li •
