Search Results for "hmm"
Sort By:
Showing 25 open source projects for "hmm"
View related business solutions-
Desktop Central is a unified endpoint management (UEM) solution that helps in managing servers, laptops, desktops, smartphones, and tablets from a central location.
-
WorkforceHub is the instantly useful, delightfully simple to use, small business solution for tracking time, scheduling and hiring. It scales as your business grows while delivering the mission-critical features an organization needs. It is tailored to, built for, and priced for small business employers.
-
1
statsmodels
Statsmodels, statistical modeling and econometrics in Python
... of the one-parameter exponential family distributions. Markov switching models (MSAR), also known as Hidden Markov Models (HMM). Vector autoregressive models, VAR and structural VAR. Vector error correction model, VECM. Robust linear models with support for several M-estimators. statsmodels supports specifying models using R-style formulas and pandas DataFrames. -
2
GenSeed-HMM
Progressive assembly tool using DNA, protein or profile HMMs as seeds.
GenSeed-HMM is a program for seed-driven progressive DNA assembly. It differs from the previously published GenSeed in many aspects, but more pointedly by being able to use an HMM profile as seed. Basically, GenSeed-HMM performs three operations, repeatedly: - recruit reads by matching them to a seed - assemble the recruited reads (including previously assembled contigs) - generate new seeds (for the next round of progressive assembly) from the extremities of all generated contigs... -
3
MetaErg
Metagenome Annotation Pipeline
MetaErg is a stand-alone and fully automated metagenome and metaproteome annotation pipeline published at: https://www.frontiersin.org/articles/10.3389/fgene.2019.00999/full. If you are using this pipeline for your work, please cite: Dong X and Strous M (2019) An Integrated Pipeline for Annotation and Visualization of Metagenomic Contigs. Front. Genet. 10:999. doi: 10.3389/fgene.2019.00999 The instructions on configuring and running the MetaErg pipeline is available at GitHub... -
4
SnowyOwl
RNA-Seq based gene prediction pipeline for fungal genomes
SnowyOwl is a gene prediction pipeline that uses RNA-Seq data to train and provide hints for the generation of Hidden Markov Model (HMM)-based gene predictions, and to evaluate the resulting models. The pipeline has been validated and streamlined by comparing its predictions to manually curated gene models in three fungal genomes, and its results show substantial increases in sensitivity and selectivity over previous gene predictions. Sensitivity is gained by repeatedly running the HMM gene... -
SysAid is an ITSM, Service Desk and Help Desk software solution that integrates all of the essential IT tools into one product. Its rich set of features include a powerful Help Desk, IT Asset Management, and other easy-to-use tools for analyzing and optimizing IT performance.
-
5
Kinannote
Protein Kinase Identification and Classification
Kinannote identifies and classifies protein kinases in a user-provided fasta file using an HMM derived from serine/threonine protein kinases, a position specific scoring matrix derived from the HMM, and comparison with a local version of the curated kinase database from kinase.com. If the user inputs a complete proteome, additional modules evaluate the completeness of the kinome and place it in context with reference kinomes. Kinannote runs on a unix command line and depends on local hmmer 2... -
6
PALM
Probabilistic natural mapping for gene based association study.
PALM is a software that conducts gene-based association analysis. PALM exploits Hidden Markov Models (HMM) to capture the inner genomic structures. Then, unique gene features (termed "palm prints") are extracted for each gene set by calculating the natural gradient. Then palm-prints are tested with chi-square significance test. -
7
The General Hidden Markov Model Library (GHMM) is a C library with additional Python bindings implementing a wide range of types of Hidden Markov Models and algorithms: discrete, continous emissions, basic training, HMM clustering, HMM mixtures.
-
8
MetaDomain
Protein domain classification for short sequences
MetaDomain is a protein domain classification tool designed for very short next-generation sequencing reads. It achieves better sensitivity and low false positive rate compared with the state-of-the-art profile hidden Markov model (profile HMM) alignment tool in identifying encoded domains from short sequences. -
9
HMM Speech Recognition in Matlab
A speech recognition system using Matlab/Simulink/Stateflow.
This project provide hidden Markov model speech recognition system by using Matlab/Simulink/Stateflow. -
This product is especially great for project managers, COOs, finance professionals, accountants, or payroll admins in any industry.
-
10
The AK toolkit is another kit for building and use Hidden Markov Models (HMMs). Originally developed for handwritten text recognition (HTR) using Bernoulli HMMs, it also implements diagonal Gaussians and can be used for any other purpose.
-
11
CvHMM
Discrete Hidden Markov Models based on OpenCV
This project (CvHMM) is an implementation of discrete Hidden Markov Models (HMM) based on OpenCV. It is simple to understand and simple to use. The Zip file contains one header for the implementation and one main.cpp file for a demonstration of how it works. Hope it becomes useful for your projects. -
12
Phage_Finder is a heuristic computer program written in PERL that uses BLASTP data, HMM results, and tRNA/tmRNA information to find prophage regions in complete bacterial genome sequences.
-
13
Contemplate is a bioinformatics tool for finding cis-regulatory modules (CRMs) in noncoding genomic regions using comparative sequence data.
-
14
Bioinformatics Perl extension for the analysis of antibody variable domain repertoires. Suitable for mammalian repertoire sequences obtained either by Sanger or 454 sequencing. Methods published in Glanville, Zhai, Berka et al, PNAS 2009.
-
15
Automatically produce functional annotations for prokaryotic genomes, consisting of protein name, EC number, GO terms, & TIGR role. Initial version developed by JCVI; uses BLAST hits from Panda sequence database, and HMM hits from TIGRFAMs and Pfams.
-
16
-
17
RefineHMM refines an original hidden Markov model (HMM) to find an optimal fit against the evolutionary group that the HMM models, and it does this using through iterative database searches and incremental subsequent adaptation of the seed set.
-
18
D-finder is a bioinformatic search algorithm for the identification of D-sites in JNK interacting proteins. The algorithm is a combination of pattern matching and a hidden markov model (HMM) based on a training set of known JNK D-sites.
-
19
t2prhd is a Perl script which generates simple diagrams that highlight relationships of sequence repeats detected by using a profile HMM in two sequences. Homology relations are identified on the basis of the phylogeny of repeats.
-
20
MeCab is a fast and customizable Japanese morphological analyzer. MeCab is designed for generic purpose and applied to variety of NLP tasks, such as Kana-Kanji conversion. MeCab provides parameter estimation functionalities based on CRFs and HMM
-
21
This is a project which implements the interface of lucene Analyzer to extend its function of coping with the problem of chinese segmentation based on the statistical model(Hiden Marcov Model)
-
22
HmmSDK is a hidden Markov model (HMM) software development kit written in Java. It consists of core library of HMM functions (Forward-backward, Viterbi, and Baum-Welch algorithms) and toolkits for application development.
-
23
SimpleSpeech is a research about developing automatic speech recognition (ASR) system that using Hidden Markov Models (HMM) method as the core engine. This research is purposed for students or ASR beginners that being interested in ASR.
-
24
This is a project to create a compiler that converts grammars written in SRGS standard (http://www.w3.org/TR/speech-grammar/) to a graph understandable by HMM based ASR engines. Check srgs-parser.sf.net
-
25
A set of classes for Natural Language Processing in PHP for: 1. Part of speech Tagging - Brill, n-gram, HMM 2. Princeton Wordnet querying and access 3. Document summarization 4. Document classification - EM, Bayes 5. Stemming - Porter, Lancaster
- Previous
- You're on page 1
- Next