Related papers: Quantifying uniformity of mapped reads
The diversity across outputs generated by LLMs shapes perception of their quality and utility. High lexical diversity is often desirable, but there is no standard method to measure this property. Templated answer structures and ``canned''…
Current popular methods in literature of RNA sequencing normalisation do not account for gene length when compared across samples, whilst adjusting for count biases in the data. This creates a gap in the normalisation as bigger genes in RNA…
In the study of computer codes, filling space as uniformly as possible is important to describe the complexity of the investigated phenomenon. However, this property is not conserved by reducing the dimension. Some numeric experiment…
Readout of superconducting qubits faces a trade-off between measurement speed and unwanted back-action on the qubit caused by the readout drive, such as $T_1$ degradation and leakage out of the computational subspace. The readout is…
In the uniformity testing task, an algorithm is provided with samples from an unknown probability distribution over a (known) finite domain, and must decide whether it is the uniform distribution, or, alternatively, if its total variation…
We introduce a family of paper and author similarity measures based on the concept that papers are more similar if they are more likely to be retrieved during a literature search following backward and forward citations. Since this browsing…
We introduce equivalence testing procedures for linear regression analyses. Such tests can be very useful for confirming the lack of a meaningful association between a continuous outcome and a continuous or binary predictor. Specifically,…
The diamond and completely bounded norms for linear maps play an increasingly important role in quantum information science, providing fundamental stabilized distance measures for differences of quantum operations. Based on the theory of…
Teramoto et al. defined a new measure called the gap ratio that measures the uniformity of a finite point set sampled from $\cal S$, a bounded subset of $\mathbb{R}^2$. We generalize this definition of measure over all metric spaces by…
Bam-readcount is a utility for generating low-level information about sequencing data at specific nucleotide positions. Originally designed to help filter genomic mutation calls, the metrics it outputs are useful as input for variant…
We study the problem of generalized uniformity testing \cite{BC17} of a discrete probability distribution: Given samples from a probability distribution $p$ over an {\em unknown} discrete domain $\mathbf{\Omega}$, we want to distinguish,…
In this work we investigate how to quantify the coherence of quantum measurements. First, we establish a resource theoretical framework to address the coherence of measurement and show that any statistical distance can be adopted to define…
We are concerned with testing replicability hypotheses for many endpoints simultaneously. This constitutes a multiple test problem with composite null hypotheses. Traditional $p$-values, which are computed under least favourable parameter…
Software packages usually report the results of statistical tests using p-values. Users often interpret these by comparing them to standard thresholds, e.g. 0.1%, 1% and 5%, which is sometimes reinforced by a star rating (***, **, *). We…
Quantum measurements with feed-forward are crucial components of fault-tolerant quantum computers. We show how the error rate of such a measurement can be directly estimated by fitting the probability that successive randomly compiled…
Aligning reads to a reference sequence is a fundamental step in numerous bioinformatics pipelines. As a consequence, the sensitivity and precision of the mapping tool, applied with certain parameters to certain data, can critically affect…
A personalized learning system needs a large pool of items for learners to solve. When working with a large pool of items, it is useful to measure the similarity of items. We outline a general approach to measuring the similarity of items…
Ultra high-throughput sequencing of transcriptomes (RNA-Seq) is a widely used method for quantifying gene expression levels due to its low cost, high accuracy and wide dynamic range for detection. However, the nature of RNA-Seq makes it…
RNA sequencing (RNA-seq) enables characterization and quantification of individual transcriptomes as well as detection of patterns of allelic expression and alternative splicing. Current RNA-seq protocols depend on high-throughput…
Many multiple testing procedures make use of the p-values from the individual pairs of hypothesis tests, and are valid if the p-value statistics are independent and uniformly distributed under the null hypotheses. However, it has recently…