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bioc
procoil:Prediction of Oligomerization of Coiled Coil Proteins
The package allows for predicting whether a coiled coil sequence (amino acid sequence plus heptad register) is more likely to form a dimer or more likely to form a trimer. Additionally to the prediction itself, a prediction profile is computed which allows for determining the strengths to which the individual residues are indicative for either class. Prediction profiles can also be visualized as curves or heatmaps.
Maintained by Ulrich Bodenhofer. Last updated 5 months ago.
proteomicsclassificationsupportvectormachine
4.95 score 1 scripts
ropensci
phruta:Phylogenetic Reconstruction and Time-dating
The phruta R package is designed to simplify the basic phylogenetic pipeline. Specifically, all code is run within the same program and data from intermediate steps are saved in independent folders. Furthermore, all code is run within the same environment which increases the reproducibility of your analysis. phruta retrieves gene sequences, combines newly downloaded and local gene sequences, and performs sequence alignments.
Maintained by Cristian Roman Palacios. Last updated 9 months ago.
9 stars 4.75 score 14 scriptsbioc
odseq:Outlier detection in multiple sequence alignments
Performs outlier detection of sequences in a multiple sequence alignment using bootstrap of predefined distance metrics. Outlier sequences can make downstream analyses unreliable or make the alignments less accurate while they are being constructed. This package implements the OD-seq algorithm proposed by Jehl et al (doi 10.1186/s12859-015-0702-1) for aligned sequences and a variant using string kernels for unaligned sequences.
Maintained by José Jiménez. Last updated 5 months ago.
alignmentmultiplesequencealignment
4.18 score 25 scripts 1 dependents