proda.stanford.edu

Proda homepage - multiple alignment of protein sequences with repeats and rearrangements

ProDA is public domain software for multiple alignment of protein sequences with repeated and shuffled elements. ProDA source code can be downloaded here. Benchmarking dataset, testing scripts, and testing results can be downloaded here. ProDA should be cited as:. Phuong T.M., Do C.B., Edgar R.C., and Batzoglou S. Multiple alignment of protein sequences with repeats and rearrangements. Nucleic Acids Research. The ProDA algorithm was developed by Tu Minh Phuong.

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Proda homepage - multiple alignment of protein sequences with repeats and rearrangements | proda.stanford.edu Reviews

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ProDA is public domain software for multiple alignment of protein sequences with repeated and shuffled elements. ProDA source code can be downloaded here. Benchmarking dataset, testing scripts, and testing results can be downloaded here. ProDA should be cited as:. Phuong T.M., Do C.B., Edgar R.C., and Batzoglou S. Multiple alignment of protein sequences with repeats and rearrangements. Nucleic Acids Research. The ProDA algorithm was developed by Tu Minh Phuong.

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Proda homepage - multiple alignment of protein sequences with repeats and rearrangements | proda.stanford.edu Reviews

https://proda.stanford.edu

ProDA is public domain software for multiple alignment of protein sequences with repeated and shuffled elements. ProDA source code can be downloaded here. Benchmarking dataset, testing scripts, and testing results can be downloaded here. ProDA should be cited as:. Phuong T.M., Do C.B., Edgar R.C., and Batzoglou S. Multiple alignment of protein sequences with repeats and rearrangements. Nucleic Acids Research. The ProDA algorithm was developed by Tu Minh Phuong.

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ProDA User Guide

http://proda.stanford.edu/manual.htm

Algorithm developed by Tu Minh Phuong, Chuong B. Do, Robert C. Edgar, and Serafim Batzoglou. Software written by Tu Minh Phuong and Chuong B. Do. Manual written by Tu Minh Phuong. ProDA (Protein Domain Aligner) is public domain software for generating multiple alignments of protein sequences with repeats and rearrangements, e.g. proteins with multiple domains. A recent multiple aligner. That shows high accuracy in a number of popular benchmarks. Infer repeats from pairwise alignments. Proda accepts input...

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Resources - Serafim's Lab

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Mostly in reverse chronological order). RFA (Random Field Aligner). A method for aligning barcoded reads generated by a read cloud protocol such as 10X or Moleculo. Reads of the same barcode are aligned jointly to the reference genome. As a result, many of the repeats in the genome can be mapped. Cancer Cell Lineage Phylogeny Inference. LICHeE: multi-sample cancer phylogeny reconstruction. POMEGRANATE: cancer lineage tree simulator. BWBBLE: short read alignment to a population of genomes. A BWT-based ali...

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proda.stanford.edu

Proda homepage - multiple alignment of protein sequences with repeats and rearrangements

ProDA is public domain software for multiple alignment of protein sequences with repeated and shuffled elements. ProDA source code can be downloaded here. Benchmarking dataset, testing scripts, and testing results can be downloaded here. ProDA should be cited as:. Phuong T.M., Do C.B., Edgar R.C., and Batzoglou S. Multiple alignment of protein sequences with repeats and rearrangements. Nucleic Acids Research. The ProDA algorithm was developed by Tu Minh Phuong.

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