Questions tagged [hts]
High-throughput sequencing.
8 questions
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Is 16S sequencing cheaper than whole-genome sequencing for taxonomic assignment?
This is adapted from a question posted on reddit
In my work, I occasionally get asked about metagenomic sequencing, which (after further questioning) I discover means that the person wants to work out ...
- 15.1k
2
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Targeted hybrid capture bam files showing reads outside target regions in my bed file
Sorry if this is a stupid question I am new to analysing targeted hybrid capture data.
I am analysing my HTS data from a targeted hybrid capture enrichment method and subsequent sequencing on a ...
- 123
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Detecting broad peaks in sRNA-seq data
What kind of tool would be appropriate do detect "broad peaks" in small RNA-seq sequencing data?
MACS2 appears to be developed for ChIP-seq data, but I see that there is a ...
- 3,205
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How to input data for DESeq2 from individual HTSeq count?
I am comparing the gene expression of 2 bacteria under 1 condition. I have now the count tables for 3 tech. replicates for each bacteria.
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well identifiers in a 1536-well mtp plate
There's a commonly accepted convention for naming the wells in a 384-well-plate:
A01..A24
B01..B24
..
P01..P24
It's concise and unambiguous and thus very useful....
- 197
6
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What is this 5-column sequencing format from 2009?
There is high throughput sequencing data here, and I don't know what format it is in.
It was submitted in 2009, and the description says the following:
Library strategy: ncRNA-Seq
Library source:...
- 3,205
7
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What unit do I get on the y-axis of a metagene profile plot?
I start with a sorted and indexed bam file ("mapped.bam") representing the mapping of small reads on a reference genome, and a bed file ("genes.bed") containing the coordinates of a set of features of ...
- 3,205
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What is the difference between NGS, 2GS, SBS and HTS?
I've come across a bit of confusion about the initialism NGS, so think it would be a good idea to clarify this term (and similar terms like 2GS, SBS, and HTS) for this site with a bit of discussion.
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