• BLAT

• Referenced in 36 articles [sw16891]
• BLAT — The BLAST-Like Alignment Tool. Analyzing vertebrate...

• rmarkdown

• Referenced in 19 articles [sw16897]
• R package rmarkdown: Dynamic Documents for R. Convert...

• HTSeq

• Referenced in 8 articles [sw16898]
• HTSeq – A Python framework to work with high...

• Galaxy

• Referenced in 12 articles [sw16927]
• Galaxy: A platform for interactive large-scale genome...

• FastQC

• Referenced in 8 articles [sw16946]
• FastQC: A quality control tool for high throughput...

• TopHat

• Referenced in 23 articles [sw17157]
• TopHat2: accurate alignment of transcriptomes in the presence...

• NGS QC Toolkit

• Referenced in 2 articles [sw17166]
• NGS QC toolkit: a toolkit for quality control...

• BioMart

• Referenced in 3 articles [sw17171]
• BioMart: a data federation framework for large collaborative...

• GMAP

• Referenced in 3 articles [sw17275]
• GMAP: a genomic mapping and alignment program for...

• IGV

• Referenced in 3 articles [sw17276]
• Integrative Genomics Viewer (IGV): high-performance genomics data...

• CellMiner

• Referenced in 2 articles [sw17277]
• Cellminer: a web-based suite of genomic and...

• AnnotationDbi

• Referenced in 2 articles [sw17278]
• AnnotationDbi: annotation database interface. R package. Provides user...

• GenomicFeatures

• Referenced in 1 article [sw17279]
• GenomicFeatures: tools for making and manipulating transcript centric...

• biomaRt

• Referenced in 3 articles [sw17280]
• biomaRt: interface to BioMart databases (e.g. Ensembl, COSMIC...

• AnnotationHub

• Referenced in 1 article [sw17281]
• AnnotationHub: client to access AnnotationHub resources. R package...

• OrganismDbi

• Referenced in 1 article [sw17282]
• OrganismDbi: software to enable the smooth interfacing of...

• BSgenome

• Referenced in 3 articles [sw17283]
• BSgenome: infrastructure for Biostrings-based genome data packages...

• AnnotationForge

• Referenced in 1 article [sw17284]
• AnnotationForge: code for building annotation database packages. R...

• GEOquery

• Referenced in 10 articles [sw17285]
• GEOquery: a bridge between the Gene Expression Omnibus...

• ExpTreeDB

• Referenced in 1 article [sw17286]
• ExpTreeDB: web-based query and visualization of manually...