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Hi,
I just finished running an existing pipeline, which I extended with pTrimmer to ensure removal of sequencing primers. The resulting data is now unfortunately improperly paired (i.e. the reads in …
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**User story**
GPL-420 | As manager for NPG (David J) we need a new library type which describes a different way of creating PCR Amplicon Illumina sequencing ready libraries to the existing "PCR ampl…
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Hello,
I am using the dms2_batch_bcsubamp program to analyze barcoded-amplicon sequencing data stored in fastq.gz files. R1 nucleotide#1 is the start of the sense sequence of my amplicon and R2 nuc…
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Hello,
I am running the dada2 script (dada2 version1.17.0) with 3 samples (2x250 ilumina miseq amplicon sequencing V3-V4 region) as an initial trail for the rest of my samples (23 in total). I have…
dvc28 updated
4 years ago
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Hi,
It would be a cool enhancement to have an "amplicon mode" for targeted sequencing (i.e. illumina cancer panels, etc).
Probably the big differences with what there is the inclusion of a manifest …
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Hi,
I feel like there is something wrong with my input data but I cannot seem to figure out what it is after searching and looking through the logs. Currently I keep getting the following:
```
…
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What maxExpectedError combination provided by Figaro is recommended for Dada2? Shoud I use the best [2, 3] result provided by Figaro or do you recommend to stick with the best [2, 2] result as recomme…
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Talking with Tim G today re Targeted BS options.
He will try amplicon based approach but there must be some limitation? To my knowledge I have not come across any such approaches in the literature.…
sr320 updated
4 years ago
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I have output from multiple sequencing runs that I want to analyze together, and some data from the same sequencing runs that I want to analyze separately. So my questions are:
1) should I combine da…
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HI, I am trying to make the database from source using the make_databses.pl. But, I am confused about why there is a need to download the preformatted database file as shown in the make _databses.pl …