Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data
SOrt-ITEMS
Data structures and compression algorithms for genomic sequence data
ESG
Efficient computation of all perfect repeats in genomic sequences of up to half a gigabyte, with a case study on the human genome
Fast and accurate short read alignment with Burrows–Wheeler transform
pGenTHREADER and pDomTHREADER
Literature-based priors for gene regulatory networks
Gradient lasso for Cox proportional hazards model
Relating periodicity of nucleosome organization and gene regulation
Seeing the forest for the trees
On the inference of spatial structure from population genetics data
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Estimating the posterior probability that genome-wide association findings are true or false
Structure discovery in PPI networks using pattern-based network decomposition
Robust synthetic biology design
Rahnuma
baobabLUNA: the solution space of sorting by reversals
Apollo
NTAP
rtracklayer
MetaTISA
PESTAS