Results for "AligNment"
Users
Brief description: Currently, I'm pursuing a PhD at Bioinformatics Centre, University of Pune, Pune, India. I have developed an algorithm for alignment-free sequence analysis with its applications in molecular phylogeny, clustering and sero/genotyping .2915 days ago
Blogs
Computer simulation of genetic mechanism !!
...aysicsabc/ BEERS BEERS was designed to benchmark RNA-Seq alignment algorithms and also algorithm...ages/rmetasim/index.html RNA Seq Simulator RSS takes SAM alignment files from RNA-Seq data and s...2965 days ago
Various scholarships around the world !!
...bsp;Fellowship program provides relevant and contemporary nephrology training to physicians.Award Details: The total sum of the grant is in alignment with the length of the traini...2807 days ago
- +14 more Blogs
Bookmarks
DAVI: Deep learning-based tool for alignment and single nucleotide variant identification
DAVI consists of models for both global and local alignment and for variant calling. We have evaluated the performance of DAVI against existing state-of-the-art tool sets and found tha...1136 days ago
Nucl2Vec: Local alignment of DNA sequences using Distributed Vector Representation
We demonstrate a novel approach forlocal alignment of DNA reads with respect to refe...ing(Nucl2Vec) and k-nearest neighbor for the alignment.With our new approach we have reduced computation cost forlocal alignment , while achieving accuracy co...1136 days ago
- +154 more Bookmarks
Files
Bioinformatics approach to Boar Taint
...>10X average coverage. Short reads generated from these samples mapped to Sus Scrofa version 10.2 reference assembly using Bowtie2. Alignment file then used for calling SN...3779 days ago
Pages
Bio++ : C Language libraries for your biological need
...vailable for inner storage, with several implementations. Support for alignments.Various I/O formats supporte...rantham) + import from any AAIndex entry.Consensus sequences.Pairwise alignment.Similarity score computation....3937 days ago
BioRuby :Ruby packages for biologist
...Source Ruby code, with classes for DNA and protein sequence analysis, alignment, database parsing, and other...use of Ruby's extremely high descriptive power. Classes for Multiple alignment (Bio::Alignment), Gene Ontolo...3937 days ago
- +2 more Pages
Top-level pages
- ...arge range of techniques are used, including primary sequence alignment, protein 3D structure alignment, phylogenetic tree constructi...statistics or neural networks. When using a multiple sequence alignment, secondary structure can be p...
3937 days ago
- ...tion to Bioinformatics Algorithms Lectures 1-2 by Dr. Max Alekseyev USC, 2009 Online Lectures on Bioinformatics Sequence Alignment Algorithms Algorithm for sequence alignment: dynamic programming Network...
3936 days ago
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Wire posts
News
- ...through the visualization of phylogenetic trees and multiple sequence alignments. Moreover, phylomeDB provid...nt genomes , including Maximum Likelihood or Bayesian tree inference, alignment trimming and evolutionary mod...
3909 days ago
Update Genome Workbench 2.7.15 released
...including graphical sequence views, various alignment views, phylogenetic tree view...ures in Genome Workbench 2.7.15 Multiple Alignment View: implemented adaptive fe...ol: improved diagnostics of errors Multiple Alignment View: optimizations to avoid...3710 days ago
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Opportunity posts
Visiting Scientist - Computational Genomics
...work as team as well as independently with minimal support. Fluency in spoken and written English is essential. NGS techniques like sequence alignment, variant calling based on who...2474 days ago
Bioinformatician - Purdue Cancer Center
...tics Proficiency in writing scripts using Perl, Python, Java, or equivalent languages Proficiency in R and UNIX/LINUX Knowledge of genomics, alignment, annotation, bioinformatics,...1176 days ago
- +1 more Opportunity posts
ResearchLabs posts
- ...and evolution, and network analysis of somatic mutations in cancer. Earlier research included topics in comparative genomics, multiple sequence alignment, and motif finding. More a...
3217 days ago
Fun
Bioinformatician become producer/director !!!
...jayenge Raju ban gaya Genefinder. Har Ligand jo dock karega. Alignment to hona hi tha. Mera sequenc...Program Tak Haan Maine Bhi ClustalW Kiya Hai GeneScan Karke Dekho Alignment Apna Sequence Parayi *Warn...3908 days ago
Video
- http:--www.biotechnology.jhu.edu- Tutorial for PSI-BLAST, an extension of BLAST that uses matrix algebra. BLAST is a cornerstone bioinformatics tool at NCBI. BLAST is the Basic Local Alignment Search tool and will protein and DNA sequences that are related to a sequence that the user provides.
3898 days ago
- lecture 9, Chem. C100, Spring 2013, UCLA
3899 days ago
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Bio-Scripts
Download genome using NCBI esearch command line !
...uery "NC_005956.1" | efetch -format fasta > seq1.fa esearch -db nucleotide -query "CP003784.1" | efetch -format fasta > seq2.fa #fastANI for alignment free comparision #conda inst...1091 days ago
Blast result parser with Perl and Bioperl
...# get the start and the end of the query sequence in the alignment print OUT $hsp->start('q...# get the start and the end of the hit sequence in the alignment print OUT $hsp->start('h...2904 days ago
- +17 more Bio-Scripts
Groups
...1990s by Yukihiro "Matz" Matsumoto in Japan. BioRuby is a package of Open Source Ruby code, with classes for DNA and protein sequence analysis, alignment, database parsing, tools for...3910 days ago
...: http://www.nutrigenomics.biz/downloadattachment/33374/Brown.pdf http://journals.sfu.ca/rncsb/index.php/csbj/article/view/csbj.201301004/205 Alignment tools for this include: mz-Mi...3695 days ago
Tags
mrFAST: Micro Read Fast Alignment Search Tool
mrFAST is a read mapper that is designed to map short reads to reference genome with a special emphasis on the discovery of structural variation and segmental duplications. mrFAST maps short reads with respect to user defined error threshold, including indels up to 4+4 bp. This manual, describes ...Tags: Bioinformatics, FASTQ, Reads, NGS, Mapping, Alignment, Reference
2921 days ago
Smash: An alignment-free method to find and visualise rearrangements between pairs of DNA sequences
Smash is a completely alignment-free method/tool to find and visualise genomic rearrangements. The detection is based on conditional exclusive compression, namely using a FCM (Markov model), of high context order (typically 20). For visualisation, Smash outputs a SVG image, with an ...Tags: Bioinformatics, Visualization, Alignment, Free, NGS, Comparative Genomics
2921 days ago
- +65 more Tags
Comments
Comment on "Basic command-line to run BLAST"
...for matches to those words in the database. It then expands the matches to identify longer regions of similarity, called "alignments," and calculates a score for each alignment that reflects its degree of s...411 days ago
Comment on "Basic command-line to run BLAST"
...ng any homology search. BLAST (Basic Local Alignment Search Tool) is a widely used...on about the sequences that matched the query sequence, including the alignment score, identity, and e-value....413 days ago
- +24 more Comments
