Algorithm | Availability | Reference | Type | Background model |
---|---|---|---|---|
PeakFinder 2.0.1 | [2] | S, C | none | |
GeneTrack 1.0.1 | [9] | S | none | |
FindPeaks 3.1.9.2 | [6] | S | uniform | |
SISSRs v1.4 | [11] | S, C | Poisson/ control sample | |
QuEST 1.0 | [8] | C | control sample | |
MACS 1.3 | [10] | S, C | local Poisson/ control sample | |
CisGenome v1 | [5] | S, C | negative binomial/ control sample (binomial) | |
PeakSeq v1.01 | [12] | C | local Poisson and control sample (binomial) | |
Hpeak 1.1 | - | S, C | hidden Markov model |