Package ‘ sSeq ’
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چکیده
Maintainer Danni Yu Depends R (>= 3.0), caTools, RColorBrewer Description The purpose of this package is to discover the genes that are differentially expressed between two conditions in RNA-seq experiments. Gene expression is measured in counts of transcripts and modeled with the Negative Binomial (NB) distribution using a shrinkage approach for dispersion estimation. The method of moment (MM) estimates for dispersion are shrunk towards an estimated target, which minimizes the average squared difference between the shrinkage estimates and the initial estimates. The exact per-gene probability under the NB model is calculated, and used to test the hypothesis that the expected expression of a gene in two conditions identically follow a NB distribution.
منابع مشابه
sSeq: A Simple and Shrinkage Approach of Differential Expression Analysis for RNA-Seq experiments
In this section, we will use the Hammer et. al. data [1] to illustrate how to use the functions in the sSeq package. The two conditions are control Sprague Dawley after 2 months (Condition A) and L5 SNL Sprague Dawley after 2 months (Condition B). There are two samples within each condition. This data is included in the sSeq package as an example, and can be imported as follows. “countsTable” i...
متن کاملPsychological and interactional characteristics of patients with somatoform disorders: Validation of the Somatic Symptoms Experiences Questionnaire (SSEQ) in a clinical psychosomatic population.
OBJECTIVE The new DSM-5 Somatic Symptom Disorder (SSD) emphasizes the importance of psychological processes related to somatic symptoms in patients with somatoform disorders. To address this, the Somatic Symptoms Experiences Questionnaire (SSEQ), the first self-report scale that assesses a broad range of psychological and interactional characteristics relevant to patients with a somatoform diso...
متن کاملPackage ‘ sSeq ’ January 15 , 2017
Maintainer Danni Yu Depends R (>= 3.0), caTools, RColorBrewer Description The purpose of this package is to discover the genes that are differentially expressed between two conditions in RNA-seq experiments. Gene expression is measured in counts of transcripts and modeled with the Negative Binomial (NB) distribution using a shrinkage approach for dispersion estimation. The meth...
متن کاملStroke Self-efficacy Questionnaire: a Rasch-refined measure of confidence post stroke.
OBJECTIVE Measuring self-efficacy during rehabilitation provides an important insight into understanding recovery post stroke. A Rasch analysis of the Stroke Self-efficacy Questionnaire (SSEQ) was undertaken to establish its use as a clinically meaningful and scientifically rigorous measure. METHODS One hundred and eighteen stroke patients completed the SSEQ with the help of an interviewer. P...
متن کاملPreoperative education for lumbar radiculopathy: A survey of US spine surgeons
BACKGROUND We sought to determine current utilization, importance, content, and delivery methods of preoperative education by spine surgeons in the United States for patients with lumbar radiculopathy. METHODS An online cross-sectional survey was used to study a random sample of spine surgeons in the United States. The Spinal Surgery Education Questionnaire (SSEQ) was developed based on previ...
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تاریخ انتشار 2013