Showing 47 of total 47 results (show query)

r-lib

pingr:Check if a Remote Computer is Up

Check if a remote computer is up. It can either just call the system ping command, or check a specified TCP port.

Maintained by Gábor Csárdi. Last updated 3 months ago.

dnsis-onlinepingtcpglibc

16.6 match 36 stars 10.33 score 114 scripts 24 dependents

bioc

igvR:igvR: integrative genomics viewer

Access to igv.js, the Integrative Genomics Viewer running in a web browser.

Maintained by Arkadiusz Gladki. Last updated 5 months ago.

visualizationthirdpartyclientgenomebrowsers

3.3 match 43 stars 8.31 score 118 scripts

py-chung

QTLEMM:QTL Mapping and Hotspots Detection

For QTL mapping, this package comprises several functions designed to execute diverse tasks, such as simulating or analyzing data, calculating significance thresholds, and visualizing QTL mapping results. The single-QTL or multiple-QTL method, which enables the fitting and comparison of various statistical models, is employed to analyze the data for estimating QTL parameters. The models encompass linear regression, permutation tests, normal mixture models, and truncated normal mixture models. The Gaussian stochastic process is utilized to compute significance thresholds for QTL detection on a genetic linkage map within experimental populations. Two types of data, complete genotyping, and selective genotyping data from various experimental populations, including backcross, F2, recombinant inbred (RI) populations, and advanced intercrossed (AI) populations, are considered in the QTL mapping analysis. For QTL hotspot detection, statistical methods can be developed based on either utilizing individual-level data or summarized data. We have proposed a statistical framework capable of handling both individual-level data and summarized QTL data for QTL hotspot detection. Our statistical framework can overcome the underestimation of thresholds resulting from ignoring the correlation structure among traits. Additionally, it can identify different types of hotspots with minimal computational cost during the detection process. Here, we endeavor to furnish the R codes for our QTL mapping and hotspot detection methods, intended for general use in genes, genomics, and genetics studies. The QTL mapping methods for the complete and selective genotyping designs are based on the multiple interval mapping (MIM) model proposed by Kao, C.-H. , Z.-B. Zeng and R. D. Teasdale (1999) <doi: 10.1534/genetics.103.021642> and H.-I Lee, H.-A. Ho and C.-H. Kao (2014) <doi: 10.1534/genetics.114.168385>, respectively. The QTL hotspot detection analysis is based on the method by Wu, P.-Y., M.-.H. Yang, and C.-H. Kao (2021) <doi: 10.1093/g3journal/jkab056>.

Maintained by Ping-Yuan Chung. Last updated 9 months ago.

8.2 match 3.18 score

mrc-ide

rrq:Simple Redis Queue

Simple Redis queue in R.

Maintained by Rich FitzJohn. Last updated 4 months ago.

clusterinfrastructure

2.2 match 24 stars 7.40 score 14 scripts 3 dependents

sbgraves237

Ecfun:Functions for 'Ecdat'

Functions and vignettes to update data sets in 'Ecdat' and to create, manipulate, plot, and analyze those and similar data sets.

Maintained by Spencer Graves. Last updated 4 months ago.

1.8 match 7.94 score 85 scripts 4 dependents