GabeAl
commented
5 years ago Hi,
This refers to the fasta format used by qiime(1) that multiplexes reads from multiple samples into a single file, with the header differentiating between samples like so:
Sample_0 [extra fasta header stuff]
Where "Sample" is the name of a sample, then there is an underscore followed by a number indicating the index of the read in the file, then optionally a space followed by arbitrary additional data.
Using the shi7 tool on your raw fastq paired end reads will automatically produce this format after it performs QC.
Cheerio, Gabe
On Wed, Apr 10, 2019, 3:22 PM waleadebayo notifications@github.com wrote:
Hi,
just a simple question to clarify something while reading through your tool,
--input data in the pipeline or even the align subsection says "combined seqs". This will essentially mean just concatenating paired end reads, for instance ? i.e. it will not mean actual merging paired end reads, as is known generally in paired-end sequencing
Many thanks
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waleadebayo
LouiseBThingholm
nduan1
Hi,
just a simple question to clarify something while reading through your tool,
--input data in the pipeline or even the align subsection says "combined seqs". This will essentially mean just concatenating paired end reads, for instance ? i.e. it will not mean actual merging paired end reads, as is known generally in paired-end sequencing
Many thanks