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Papers: 10.1186/1471-2164-14-892

https://doi.org/10.1186/1471-2164-14-892

RNA-Seq optimization with eQTL gold standards

Cited by: 24
Author(s): Shannon Ellis, Saloni Gupta, Foram N. Ashar, Joel S. Bader, Andrew B. West, Dan E. Arking
Published: over 11 years ago

Software Mentions 9

bioconductor: EDASeq
Exploratory Data Analysis and Normalization for RNA-Seq
Papers that mentioned: 61
Very Likely Science (100)
bioconductor: sva
Surrogate Variable Analysis
Papers that mentioned: 511
Very Likely Science (100)
cran: isva
Independent Surrogate Variable Analysis
Papers that mentioned: 5
Very Likely Science (93)
cran: MatrixEQTL
Matrix eQTL: Ultra Fast eQTL Analysis via Large Matrix Operations
Papers that mentioned: 81
Very Likely Science (85)
pypi: cutadapt
Adapter trimming and other preprocessing of high-throughput sequencing reads
Papers that mentioned: 1,562
Very Likely Science (100)
pypi: house
A lib to persist blobs by their sha256
Papers that mentioned: 960
Very Likely Science (65)
pypi: HTSeq
A framework to process and analyze data from high-throughput sequencing (HTS) assays
Papers that mentioned: 3,071
Very Likely Science (65)
pypi: scripts
Various shell scripts
Papers that mentioned: 315
Very Likely Science (65)
pypi: TopHat
TopHat Platform
Papers that mentioned: 5,017
Very Likely Science (90)