FIMO
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(89)- Gene regulatory networks. Methods and protocols
- PHENIX
- GOSim
- Spectronet
- VCFtools
- MEME
- Cross-species network and transcript transfer
- PRALINE
- SnpEff
- BioMart
- YACOP
- IGV
- BSgenome
- ANNOVAR
- BEDTools
- rBiopaxParser
- Statistical genomics. Methods and protocols
- CONREAL
- modMine
- BIPS
- ORegAnno
- rVISTA
- JASPAR
- InteroPORC
- UniPROBE
- Consed
- STRAP
- STRait Razor
- AMoRe
- MOLREP
- Coot
- GFF-Ex
- RamiGO
- kClust
- CLAP
- EVEREST
- CATH
- HAMAP
- PIRSF
- OrthoDB
- FunTree
- Gene3D
- SEAVIEW
- PHYLO_WIN
- CINEMA
- Cgaln
- FRESCO
- BRIG
- CGView
- Dotlet
- JDotter
- M-GCAT
- AceView
- GtRNAdb
- Savant Genome Browser
- MEME-LaB
- piRNABank
- piRBase
- piRNAQuest
- ModuleMaster
- MATCH
- Stampy
- NextGenMap
- Ensembl REST
- BioStar
- TICO
- CRITICA
- GeneMarkS
- ZCURVE
- MOCAT
- GOLD
- Conrad
- CONTRAST
- mGene
- REGANOR
- jModelTest
- PhyloBayes 3
- SeqVis
- LDDist
- RDP2
- PhyloBayes MPI
- Hetero
- BMGE
- CLANN
- ExaBayes
- TOPAL
- Strelka
- Bioinformatics. Volume I. Data, sequence analysis, and evolution
- Identifying potential regulatory elements by transcription factor binding site alignment using partial order graphs
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