Shaul YD, Yuan B, Thiru P, et al. MERAV: a tool for comparing gene expression across human tissues and cell types. Nucleic Acids Res. 2016;44(D1):D560-6. doi:10.1093/nar/gkv1337
Li W, Köster J, Xu H, et al. Quality control, modeling, and visualization of CRISPR screens with MAGeCK-VISPR. Genome Biol. 2015;16:281. doi:10.1186/s13059-015-0843-6
Kaminski J, Gibson MK, Franzosa EA, Segata N, Dantas G, Huttenhower C. High-Specificity Targeted Functional Profiling in Microbial Communities with ShortBRED. PLoS Comput Biol. 2015;11(12):e1004557. doi:10.1371/journal.pcbi.1004557
Logan DJ, Shan J, Bhatia SN, Carpenter AE. Quantifying co-cultured cell phenotypes in high-throughput using pixel-based classification. Methods. 2016;96:6-11. doi:10.1016/j.ymeth.2015.12.002
Qu K, Garamszegi S, Wu F, et al. Integrative genomic analysis by interoperation of bioinformatics tools in GenomeSpace. Nat Methods. 2016;13(3):245-7. doi:10.1038/nmeth.3732
Randlett O, Wee CL, Naumann EA, et al. Whole-brain activity mapping onto a zebrafish brain atlas. Nat Methods. 2015;12(11):1039-46. doi:10.1038/nmeth.3581
Uhlmann V, Singh S, Carpenter AE. CP-CHARM: segmentation-free image classification made accessible. BMC Bioinformatics. 2016;17:51. doi:10.1186/s12859-016-0895-y
Chen J, Shishkin AA, Zhu X, et al. Evolutionary analysis across mammals reveals distinct classes of long non-coding RNAs. Genome Biol. 2016;17:19. doi:10.1186/s13059-016-0880-9
Colubri A, Silver T, Fradet T, Retzepi K, Fry B, Sabeti P. Transforming Clinical Data into Actionable Prognosis Models: Machine-Learning Framework and Field-Deployable App to Predict Outcome of Ebola Patients. PLoS Negl Trop Dis. 2016;10(3):e0004549. doi:10.1371/journal.pntd.0004549
Li H. BGT: efficient and flexible genotype query across many samples. Bioinformatics. 2016;32(4):590-2. doi:10.1093/bioinformatics/btv613