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ADT data analysis [2] [7] [10] [11] (based on the developer's guidelines): CITE-seq-Count is a Python package from CITE-Seq developers that can be used to obtain raw counts. Seurat package from Satija lab further allows combining of the protein and RNA counts and performing clustering on both measurements, as well as doing differential ...
Sequential pattern mining is a topic of data mining concerned with finding statistically relevant patterns between data examples where the values are delivered in a sequence. [ 1 ] [ 2 ] It is usually presumed that the values are discrete, and thus time series mining is closely related, but usually considered a different activity.
Compressed Reference-oriented Alignment Map (CRAM) is a compressed columnar file format for storing biological sequences aligned to a reference sequence, initially devised by Markus Hsi-Yang Fritz et al. [1] CRAM was designed to be an efficient reference-based alternative to the Sequence Alignment Map (SAM) and Binary Alignment Map (BAM) file ...
However, comparing these new sequences to those with known functions is a key way of understanding the biology of an organism from which the new sequence comes. Thus, sequence analysis can be used to assign function to coding and non-coding regions in a biological sequence usually by comparing sequences and studying similarities and differences.
Given a set of contigs, the N50 is defined as the sequence length of the shortest contig at 50% of the total assembly length. It can be thought of as the point of half of the mass of the distribution; the number of bases from all contigs longer than the N50 will be close to the number of bases from all contigs shorter than the N50 .
The WBS Dictionary describes each component of the WBS with milestones, deliverables, activities, scope, and sometimes dates, resources, costs, quality. According to the Project Management Institute , the WBS dictionary is defined as a "document that provides detailed deliverable, activity, and scheduling information about each component in the ...
The plot visualizes the differences between measurements taken in two samples, by transforming the data onto M (log ratio) and A (mean average) scales, then plotting these values. Though originally applied in the context of two channel DNA microarray gene expression data, MA plots are also used to visualise high-throughput sequencing analysis.
Most high-throughput, next generation sequencing platforms produce shorter read lengths compared to Sanger sequencing.These new platforms are able to generate large quantities of data in short periods of time, but until methods were developed for de novo assembly of large genomes from short read sequences, Sanger sequencing remained the standard method of creating a reference genome. [10]