MACSE: Multiple Alignment of Coding SEquences Accounting for Frameshifts and Stop Codons
...ds/contigs against a reference coding sequence. For further details about the underlying algorithm see the original publication:MACSE: Multiple Alignment of Coding SEquences accountin...1927 days ago
1873 days ago
MSAProbs - Parallel and accurate multiple sequence alignment
MSAProbs is a well-established state-of-the-art multiple sequence alignment algorithm for protein sequences. The design of MSAProbs is based on a combination of pair hidden Markov...1785 days ago
Cactus: a reference-free whole-genome multiple alignment program
Cactus is a reference-free whole-genome multiple alignment program. The principal algorithms are described here: https://doi.org/10.1101/gr.123356.111 Cactus uses substantial res...1752 days ago
Miropeats: discovers regions of sequence similarity amongst any set of DNA sequences
...l sequence analyses but it is limited by the verbosity of traditional alignment presentation styles. Miropeat...cs. The latest version of Miropeats can be used as a general pairwise alignment program or in its traditional...1737 days ago
Kalign: fast multiple sequence alignment program for biological sequences.
...lign is a fast multiple sequence alignment program for biological sequen...Align sequences and output the alignment in MSF format: kalign -i BB1...Align sequences and output the alignment in clustal format: kalign -i...-o out.afa Reformat existing alignment: kalign -i BB11001.msf -r af...1671 days ago
Shouji: a fast and efficient pre-alignment filter for sequence alignment
...leration to significantly reduce the execution time of short sequence alignment, a crucial step in analyzing...mes. We introduce Shouji, a highly parallel and accurate pre-alignment filter that remarkably reduce...1668 days ago
BioJupies: Automatically Generates RNA-seq Data Analysis Notebooks
...Jupies now supports user accounts! Sign in from the top right corner of the page for access to unlimited private notebooks, RNA-seq datasets and alignment jobs.1255 days ago
GfaViz: flexible and interactive visualization of GFA sequence graphs
...s remains its core application, it is more general, and able to represent many different types of sequence graphs, including scaffolding graphs, alignment graphs, variant graphs and sp...1588 days ago
FastGT: an alignment-free method for calling common SNVs directly from raw sequencing reads
FastGT is a program package for whole-genome genotyping of genome variants directly from raw sequencing reads. It is written in C and runs in Linux. FastGT uses a list o...1583 days ago