Tsrchitect
WebIt allows the user to efficiently identify the putative promoter from a variety of TSS profiling data types, including both single-end as well as paired-end. In addition, it provides the … WebTSRchitect allows the user to efficiently identify the putative promoter (the transcription start region, or TSR) from a variety of TSS profiling data types, including both single-end (e.g. CAGE) as well as paired-end (RAMPAGE, PEAT, STRIPE-seq). In addition, (new with version 1.3.0) TSRchitect provides the ability to import aligned EST and ...
Tsrchitect
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WebApplication of Transcription Start Site (TSS) profiling technologies, coupled with large-scale next-generation sequencing (NGS) has yielded valuable insights into the location, structure, and activity of promoters across diverse metazoan model systems. In insects, TSS profiling has been used to char … WebJun 1, 2024 · Collectively, GoSTRIPES and TSRchitect represent an end-to-end pipeline for TSS identification that we term TSRbuild (Supplemental Methods). To determine a read number threshold for STRIPE-seq analysis, we assessed the promoter-proximal fraction of TSSs, with a promoter definition of −250 to +100 bp relative to annotated gene starts.
WebNov 8, 2024 · In TSRchitect: Promoter identification from large-scale TSS profiling data. Description Usage Arguments Value. View source: R/clustering-functions.R. Description. … WebDec 16, 2024 · TSRchitect is an open-source bioinformatics package that is intended to support large-scale, reproducible analysis of TSS profiling data in a broad array of …
WebNov 10, 2024 · TSRchitect, the package we’ll use for this analysis, is an R package available in the Bioconductor suite of genomics tools . It makes use of existing packages and data … WebSearchable archive for Singularity Hub (2016-2024) - singularityhub-archive/BrendelGroup-TSRchitect-latest.md at main · singularityhub/singularityhub-archive
WebTSRchitect allows the user to efficiently identify the putative promoter (the transcription start region, or TSR) from a variety of TSS profiling data types, including both single-end (e.g. CAGE) as well as paired-end (RAMPAGE, PEAT, STRIPE-seq). In addition, (new with version 1.3.0) TSRchitect provides the ability to import aligned EST and ...
http://bioconductor.jp/packages/3.5/bioc/manuals/TSRchitect/man/TSRchitect.pdf pondhu family hubWebIt allows the user to efficiently identify the putative promoter from a variety of TSS profiling data types, including both single-end as well as paired-end. In addition, it provides the ability to import aligned EST and cDNA data. Along with the coordiantes of identified TSRs, TSRchitect also calculates the width, abundance and two forms of the Shape Index, and … pond house weddingWebFinally, TSRchitect imports annotation files, allowing the user to associate identified promoters with genes and other genomic features. Three detailed examples of … pondhu school st austellWebTSRchitect User’s Guide TSRchitect User’s Guide R. Taylor Raborn and Volker P. Brendel Department of Biology, Indiana University First edition 25 January 2024 Updated 3 July 2024 TSRchitect is an R package for analyzing diverse types of high-throughput transcriptionstartsite(TSS)profilingdatasets. Inrecentyears,large-scaleTSS shanti hospitality groupWebNov 8, 2024 · In TSRchitect: Promoter identification from large-scale TSS profiling data. Description Usage Arguments Value. Description. An internal function, which is invoked … pondi bus horaireWebFinally, TSRchitect imports annotation files, allowing the user to associate identified promoters with genes and other genomic features. Three detailed examples of TSRchitect's utility are provided in the User's Guide, included with this package. Author: R. Taylor Raborn [aut, cre, cph] Volker P. Brendel [aut, cph] Krishnakumar Sridharan [ctb] pond ice formationWebThis is the Singularity Hub archive, where you can search for (still pull-able) Singularity images and recipes from the original Singularity Hub, active from 2016 until 2024. pond ice breaker