Good morning!!!
I am fairly new to the world of sequencing and bioinformatics! But as part of my PhD I am sequencing 16S rRNA to identify what bacterial consortia are present in some microalgal cultures I have!
The idea is to do Ion Torrent type sequencing of the V6 region to start identifying the bacterial consortia present.
From what I understand, we will then receive the raw data as FASTQ ( millions of reads (??)) which we then need to sort through using software such as TopHat then use rRNA databases such as SILVA to place the bacteria in a phylogenetic tree.
Do any of you have any advice of what software to use and what databases? What parameters must be set for ambiguity so my results are of a publishable quality (cross fingers)?
Any help to try and understand the bioinformatics side of things will be greatly appreciated!!
Have a lovely day all!!
I am fairly new to the world of sequencing and bioinformatics! But as part of my PhD I am sequencing 16S rRNA to identify what bacterial consortia are present in some microalgal cultures I have!
The idea is to do Ion Torrent type sequencing of the V6 region to start identifying the bacterial consortia present.
From what I understand, we will then receive the raw data as FASTQ ( millions of reads (??)) which we then need to sort through using software such as TopHat then use rRNA databases such as SILVA to place the bacteria in a phylogenetic tree.
Do any of you have any advice of what software to use and what databases? What parameters must be set for ambiguity so my results are of a publishable quality (cross fingers)?
Any help to try and understand the bioinformatics side of things will be greatly appreciated!!
Have a lovely day all!!
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