Hello,
I'm trying to figure out how to analyze these fastq files. We received 2 files, one labeled R1 and the other R2. Its raw data and there seems to be some barcodes within the file as well. It was sequencing for the ITS2 region of the sample. I've been looking at certain programs such as anaconda to see if I analyze the results but have never used these kinds of programs before. I just wanted some advice in what general direction I should look to, to figure out what fungal species are within these files. Thank you!
- Anastasia Guseva you can install MOTHUR Briefly, the workflow would be
1. Data cleaning
2. Files optimization (Count.seq, Screen.seqs)
3. Sequence alignment (reference Database) (align.seqs)
4. Clustering/merging and chimera removal (pre.cluster)
5. Taxonomic classification (classifyseqs)
6. Cluster sequences into OTUs (classify.otu)
7. Diversity analysis
8. Visualisation (Krona)
Name of a few software
Metagenome assembly
- Velvet
- Celera
Microbial diversity Analysis
- MLST
- MOTHUR
- EstimateS
Thank you
Ankur Das
I've been trying with Anaconda but with no experience in programming its a bit difficult. I'll try your method.
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