Results for "Sequence"
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 .2916 days ago
- Skills: Next Generation Sequence Analysis
2712 days ago
- +4 more Users
Blogs
How to install Perl modules manually, using CPAN command, and other quick ways
...l data and applications (default version)python-biopython-sql - Biopython support for the BioSQL database schemalibbtlib-perl - library for basic sequence manipulation # sudo apt-get...3940 days ago
Five points for bioinformatics software/tools
...of data and try to make sense of it, biologically. But, most of the newbie bioinformaticians are faced with dilemma when they receive biological sequence data for the first time. They...3698 days ago
- +36 more Blogs
Bookmarks
Download mutliple fasta file from NCBI in one GO!!
...se three ways mentioned in bookmark link to extract/download all fasta sequences in single click given that y...(/^>(\S+)/){$c=$i{$1}}$c?print:chomp;$i{$_}=1 if @ARGV' GIs.txt >sequence.fasta where GIs.txt contains...3900 days ago
Next Generation Sequencing (NGS) Tutorials
...data analysis DOI: 10.1093/bioinformatics/btr441 ngs_backbone: a pipeline for read cleaning, mapping and SNP calling using Next Generation Sequence 10.1186/1471-2164-...3478 days ago
- +267 more Bookmarks
Files
Detect the sequence pattern and its location in fasta file with match and mismatches information.
This script is one of my old script to detect some centromeric pattern in chromosomes. User can also control the number of mismatches allowed through command line .. To run: perl centro.pl3858 days ago
- Mostly FASTA file contain NNN characters, which can be replace by random A T G C character with this perl script. It also print the FASTA sequence name, N's counts, nucleotide count and percentage details at command prompt/standard output.
3856 days ago
- +3 more Files
Discussion topics
- ...to notice that most genomicsequences differ by very little. It ma...at the number of complete genome sequences being stored is increasing r...ll. In other words, a single DNA sequence isn't particularly compressib...ws/181-algorithms/4537-a-new-dna-sequence-search-compressive-genomics.h...
3910 days ago
Pages
Bio++ : C Language libraries for your biological need
...f C++ libraries for Bioinformatics, including sequence analysis,phylogenetics, molec...ique features of the libraries are as follows:Sequence analysis Sequence and Site o...theil J, Boussau B. Non-homogeneous models of sequence evolution in the Bio++ suite...3938 days ago
BioRuby :Ruby packages for biologist
BioRuby is a package of Open Source Ruby code, with classes for DNA and protein sequence analysis, alignment, database parsing, and other Bioinformatics tools.BioRuby project provides...3937 days ago
- +7 more Pages
Top-level pages
- ...ing nucleotide and amino acid sequences, protein domains, and protei...or example, DNA or amino acid sequences and three–dimensional...tein interactions. Analysing sequence data: The primary data of se...The SWISS–PROT protein sequence database and its supplement T...
3937 days ago
- ...e method for solving a problem using a finite sequence of instructions. Algorithms a...USC, 2009 Online Lectures on Bioinformatics Sequence Alignment Algorithms Algorit...bull;http://laguerre.psc.edu/biomed/TUTORIALS/SEQUENCE/MULTIPLE/tutorial.html•h...
3936 days ago
- +38 more Top-level pages
Wire posts
News
100K Foodborne Pathogen Genome Project
...hnologies, today announced that it has added 20 newly completed genome sequences of foodborne disease-causing...al Center for Biotechnology Information. 100K Genome Project, aims to sequence the genomes of 100,000 bacter...3913 days ago
Prime Minister’s 100k Genome Project
Genomics Ebgland is destined to sequence 100,000 patients over the next five year in England. A landmark project by british government. Genomics England will play a key role in...3913 days ago
- +29 more News
Opportunity posts
Structural polymorphism analysis from NGS data
...a flagship project aiming at understanding and improving the adaptive capacity of agroecosystems it will be critical to establish a link between sequence variation, functional variati...3939 days ago
Bioinformatics PhD studentship available in New Zealand
...ir influences on different phenotypes and disease states of a cell. Recent shifts towards large-scale analyses of transcriptional regulation on a sequence and epigenetic level are at t...3938 days ago
- +38 more Opportunity posts
ResearchLabs posts
- ...ding in human disease. Research Area: Analysis of Next Generation sequence data in cancer Methods for a...cing in malaria Computational comparative genomics Sensitive genomic sequence search techniques using hidde...
3938 days ago
Donnelly Centre of Cellular & Biomolecular Research (CCBR), Bader Lab
...rately predict links, such as specific molecular interactions, in eukaryotic cell signaling systems using comprehensive genomics data like genome sequence and transcript profiles. We a...3938 days ago
- +19 more ResearchLabs posts
Fun
Bioinformatician become producer/director !!!
...dock karega. Alignment to hona hi tha. Mera sequence mera base. Markov aapke hai.... MOTIF mil gaya. BLASTana FASTAna. Hamari Sequence aapke pass hai. BLAST To Hon...iya Hai GeneScan Karke Dekho Alignment Apna Sequence Parayi *Warning: It contai...3909 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
Bioinformatics -- Understanding of living systems through information science
..., aiming to decode all human DNA sequences, has highlighted a research...been read using next-generation sequencers, and analyzed by computers....an organism evolves, its genome sequence changes through sudden mutati...ibara Lab uses a next-generation sequencer at Keio University, along wi...3907 days ago
- +12 more Video
Bio-Scripts
R script to visualize fastANI core-genome comparison
####### # Purpose: Visualize fastANI core-genome comparison # Usage: Rscript # Output: .pdf # Uses genoPlotR package: http://genoplotr.r-forge.r-project.org...1091 days ago
BioPerl to convert between sequence formats from Fasta to Genbank
#!/usr/local/bin/perl -w # Sequence formats to choose: Fasta, EMBL. GenBank, Swissprot, PIR and GCG use Bio::SeqIO; $inFile = "BRCA2.fa"; $in = Bio::SeqIO->newFh('-file' =...2906 days ago
- +90 more Bio-Scripts
Groups
...eveloped in the mid-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...3910 days ago
Single molecule Sequencing (SMS)
...quencing world, more and more scientists now keen to use SMS method to sequence molecules in comparatively le...be flood the market soon and may be one day it replaces 2nd generation sequencer. This group is meant to sha...3217 days ago
Tags
Software and Tools to detect structure variation with long reads !!
Uncovering the connection between genetics and heritable diseases requires an approach that looks at all the variant bases and types in a genome. While a PacBio de novo assembly resolves the most novel SV variants. 8-10X PacBio coverage of single genomes or trios reveals triple the SVs ...Tags: Bioinformatics, LR, Long, Reads, Tools, Software, Pacbio, Genome, DNA, Sequence, NGS, SV, Variation, Structure
2598 days ago
Tools for Sequence translation !
BOrf - https://github.com/betsig/borf CodAn - https://github.com/pedronachtigall/CodAn EMBOSS-Sixpack - https://www.ebi.ac.uk/Tools/st/emboss_sixpack/ esl-translate - http://hmmer.org/, https://github.com/EddyRivasLab/easel GeneMarkS-T - ...Tags: Sequence, Translation
534 days ago
- +1 more Tags
Comments
Comment on "Short-read assembly using Spades !"
Short-read assembly is the process of constructing a genome sequence from a large number of short sequencing reads. SPAdes (St. Petersburg genome assembler) is a po...406 days ago
Comment on "Tools for Sequence translation !"
Sequence translation is the process of converting a DNA or RNA sequence into its corresponding protein sequence. This is an important step in...lows users to translate a DNA sequence into its corresponding protei...the many tools available for sequence translation. The choice of to...411 days ago
- +50 more Comments
