MAGIC: A tool for predicting transcription factors and cofactors driving gene sets using ENCODE data
...to look for statistical enrichment of TFs and cofactors in gene bodies and flanking regions in gene lists without an a priori binary classification of genes as targets or non-ta...1255 days ago
k-mers tutorial - classification and taxonomy
DNA k-mers underlie much of our assembly work, and we (along with many others!) have spent a lot of time thinking about how to store k-mer graphs efficiently, dis...982 days ago
960 days ago
Tiara: deep learning-based classification system for eukaryotic sequences
With a large number of metagenomic datasets becoming available, eukaryotic metagenomics emerged as a new challenge. The proper classification of eukaryotic nuclear and organellar genomes is an essential step toward a better understanding of eukaryotic diversity.782 days ago
Metabuli 분리 improves metagenomic read classification
Metabuli 분리 improves metagenomic read classification through metamers, DNA-AA k-mers, to be sensitive and specif...amino acid (AA) sequences. DNA-based classifiers can make specific classifications, exploiting point mutations...336 days ago
doubletrouble: identify duplicated genes from whole-genome protein sequences and classify
...n be further subdivided into rTRD (retrotransposon-derived duplication) and dTRD (DNA transposon-derived duplication). If users want a simpler classification scheme, duplicates can also b...60 days ago