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:
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bedtools
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a swiss-army knife of tools for a wide-range of genomics analysis tasks. The most widely-used tools enable genome arithmetic. Bedtools allows one to intersect, merge, count, complement, and shuffle genomic intervals from multiple files in widely-used genomic file formats such as BAM, BED, GFF, VCF. While each individual tool is designed to do a relatively simple task (e.g., intersect two interval files), sophisticated analyses …
Keywords:
Other
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CRISPRCasFinder
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enables the easy detection of CRISPRs and cas genes in user-submitted sequence data (allows sequences up to 50 Mo otherwise download standalone program). This is an update of the CRISPRFinder program with improved specificity and indication on the CRISPR orientation. MacSyFinder is used to identify cas genes, the CRISPR-Cas type and subtype.
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DeepFoldRNA
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a deep-learning based method for de novo RNA tertiary structure prediction.
Keywords:
Tertiary Structure Prediction
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Infernal
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(INFERence of RNA ALignment) searches DNA sequence databases for RNA structure and sequence similarities and uses a special case of profile stochastic context-free grammars called covariance models (CMs). In many cases It is more capable of identifying RNA homologs that conserve their secondary structure more than their primary sequence.
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plmc
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infers undirected graphical models to describe coevolution and covariation in families of biological sequences. With a multiple sequence alignment as an input, plmc can quantify inferred coupling strengths between all pairs of positions (couplingsfile output) or infer a generative model of the sequences for predicting the effects of mutations or designing new sequences (paramfile output).
Keywords:
Statistical Analysis
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SAM
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(Sequence Alignment and Modeling system) a collection of tools for creating, refining, and using linear hidden Markov models for biological sequence analysis.
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SRA Toolkit
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(Sequence Read Archive Toolkit) a collection of tools and libraries for using data in the INSDC Sequence Read Archives.
Keywords:
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