Results 11 to 20 of about 93,670 (312)
, 2022 What's Changed Fix strand balance automatic selection bug by @cokelaer in https://github.com/sequana/rnaseq/pull/19 Fix python3.8 and 3.9 requirements by @cokelaer in https://github.com/sequana/rnaseq/pull/22 update workflow to use fastp wrapper by ...
Thomas Cokelaer, Etienne Kornobis
core +1 more source
Bayesian Biomarker Discovery for RNAseq Data [PDF]
Proceedings of the 2018 ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics, 2018 RNAseq has become a popular technology for biomarker discovery. However, in many applications, such as single cell sequencing, zero counts comprise a considerable portion of data. Here we propose a new RNAseq model that explicitly models zero counts and solve a previously proposed feature selection framework, called Optimal Bayesian Filter (OBF), for ...
Ali Foroughi Pour, Lori A. Dalton
openaire +1 more source
Arkas: Rapid reproducible RNAseq analysis [PDF]
F1000Research, 2017 The recently introduced Kallisto pseudoaligner has radically simplified the quantification of transcripts in RNA-sequencing experiments. We offer cloud-scale RNAseq pipelines Arkas-Quantification , and Arkas-Analysis available within Illumina’s ...
Anthony R. Colombo +2 more
openaire +2 more sources
, 2023 What's Changed move containers in the config file by @cokelaer in https://github.com/sequana/rnaseq/pull/25 Fixing CI action (apptainer) by @cokelaer in https://github.com/sequana/rnaseq/pull/27 update new apptainer for graphviz by @cokelaer in https ...
Thomas Cokelaer, Etienne Kornobis
core +1 more source
Transcriptional response to West Nile virus infection in the zebra finch (Taeniopygia guttata) [PDF]
Royal Society Open Science, 2017 West Nile virus (WNV) is a widespread arbovirus that imposes a significant cost to both human and wildlife health. WNV exists in a bird-mosquito transmission cycle in which passerine birds act as the primary reservoir host.
Daniel J. Newhouse +2 more
doaj +1 more source
Massive Parallel Alignment of RNA-seq Reads in Serverless Computing
Big Data and Cognitive Computing, 2023 In recent years, the use of Cloud infrastructures for data processing has proven useful, with a computing potential that is not affected by the limitations of a local infrastructure.
Pietro Cinaglia +2 more
doaj +1 more source
, 2023 What's Changed Fix options not used in star_mapping by @cokelaer in https://github.com/sequana/rnaseq/pull/30 to limit the memory usage at the sorting stage. Full Changelog: https://github.com/sequana/rnaseq/compare/v0.17.1...v0.17.
Thomas Cokelaer, Etienne Kornobis
core +1 more source
Transcriptomic profiling against Globodera pallida in resistant and susceptible potato roots
Revista Peruana de Biología, 2020 Globodera pallida is a white potato cyst nematode present in the Andes, which causes huge losses to Peruvian farmers. An RNA-seq analysis allowed the identification of candidate genes that could mediate resistance against this pathogen.
Hans Carreño +4 more
doaj +1 more source
Journal of the American Society for Horticultural Science, 2023 The Oomycete plant pathogen, Phytophthora capsici, causes root, crown, and fruit rot of winter squash (Cucurbita moschata) and limits production. Some C.
Safa A. Alzohairy +4 more
doaj +1 more source
GeneBANGS/RNASeq: stable release
, 2023 A Snakemake pipeline for RNASeq data ...
Matteo Massidda
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