Supported Applications
AppCiter will help you create a bibliography of the programs you wish to cite. See How.
AppCiter Programs:
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How to use AppCiter?
AppCiter will help you create a bibliography of the programs you wish to cite.
1. Choose Your Programs
Use the button in the Name column to choose your programs. Proceed to Step 2 to view available citations.
2. Select Citations
Select citations from a custom list. Proceed to Step 3 to download.
3. Export Citations
Export citations or send them to your email.
CloseResults:
| Name | Description | Links |
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AMPS
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(Alignment of Multiple Protein Sequences) a suite of programs for protein multiple sequence alignment, pairwise alignment, statistical analysis and flexible pattern matching.
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EVcouplings
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a tool to predict protein structure, function, and mutations using evolutionary sequence covariation.
Keywords:
Proteomics
Protein Structure Analysis
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FAMSA
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implements an algorithm for large-scale multiple sequence alignments (400k proteins in 2 hours and 8BG of RAM).
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Fastcov
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is an implementation of a new algorithm, named Fastcov, to identify multiple correlated changes in biological sequences using an independent pair model followed by a tandem model of site-residue elements based on inter-restriction thinking.
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HHsuite
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an open-source software package for sensitive protein sequence searching based on the pairwise alignment of hidden Markov models (HMMs).
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HMMER
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is used for searching sequence databases for sequence homologs, and for making sequence alignments. It implements methods using probabilistic models called profile hidden Markov models (profile HMMs).
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I‑TASSER
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(Iterative Threading ASSEmbly Refinement) a hierarchical approach to protein structure and function prediction. Structural templates are first identified from the PDB by multiple threading approach LOMETS; full-length atomic models are then constructed by iterative template fragment assembly simulations. Finally, function inslights of the target are derived by threading the 3D models through protein function database BioLiP.
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MAFFT
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a multiple sequence alignment program for unix-like operating systems. It offers a range of multiple alignment methods, L-INS-i (accurate; for alignment of <200 sequences), FFT-NS-2 (fast; for alignment of <30,000 sequences).
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PSIPRED
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uses a simple and accurate secondary structure prediction method incorporating two feed-forward neural networks which perform an analysis on output obtained from BLAST.
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ZDOCK
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a full rigid-body search of docking orientations between two proteins.
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