:: DESCRIPTION
PCRduplicates is a computational method to estimate the PCR duplication rate in high-throughput DNA sequencing experiments
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bansal V.
A computational method for estimating the PCR duplication rate in DNA and RNA-seq experiments.
BMC Bioinformatics. 2017 Mar 14;18(Suppl 3):43. doi: 10.1186/s12859-017-1471-9. PMID: 28361665; PMCID: PMC5374682.
:: DESCRIPTION
TERIUS is a program designed to differentiate between long non-coding RNAs and transcripts with coding potential or transcripts that are actually 3’UTR fragments of mRNAs. TERIUS distinguishes these transcripts using two-step filtration process from bona fide lncRNAs.
:: DEVELOPER
BIG Lab. (BIOINFORMATICS & GENOMICS)
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Choi SW, Nam JW.
TERIUS: accurate prediction of lncRNA via high-throughput sequencing data representing RNA-binding protein association.
BMC Bioinformatics. 2018 Feb 19;19(Suppl 1):41. doi: 10.1186/s12859-018-2013-9. PMID: 29504902; PMCID: PMC5836835.
:: DESCRIPTION
ezVIR is a bioinformatics pipeline which was designed to process HTS data from any of the standard platforms and to evaluate the entire spectrum of known human viruses at once, providing results that are easy to interpret and customizable.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Petty TJ, Cordey S, Padioleau I, Docquier M, Turin L, Preynat-Seauve O, Zdobnov EM, Kaiser L.
Comprehensive human virus screening using high-throughput sequencing with a user-friendly representation of bioinformatics analysis: a pilot study.
J Clin Microbiol. 2014 Sep;52(9):3351-61. doi: 10.1128/JCM.01389-14. Epub 2014 Jul 9. PMID: 25009045; PMCID: PMC4313162.
:: DESCRIPTION
MultiGeMS (Multi-sample Genotype Model Selection) is a multiple sample single nucleotide variant (SNV) caller that works with alignment files of high-throughput sequencing (HTS) data. MultiGeMS calls SNVs based on a statistical model selection procedure and accounts for enzymatic substitution sequencing errors.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
MultiGeMS: Detection of SNVs from Multiple Samples Using Model Selection on High-Throughput Sequencing Data.
Murillo G, You N, Su X, Cui W, Reilly MP, Li M, Ning K, Cui X.
Bioinformatics. 2016 Jan 18. pii: btv753
:: DESCRIPTION
metagenomeSeq is designed to determine features (be it Operational Taxanomic Unit (OTU), species, etc.) that are differentially abundant between two or more groups of multiple samples. metagenomeSeq is designed to address the effects of both normalization and under-sampling of microbial communities on disease association detection and the testing of feature correlations.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Nat Methods. 2013 Dec;10(12):1200-2. doi: 10.1038/nmeth.2658. Epub 2013 Sep 29.
Differential abundance analysis for microbial marker-gene surveys.
Paulson JN1, Stine OC, Bravo HC, Pop M.
