Results for "Reference-Guided"
Blogs
Tools to detect synteny blocks regions among multiple genomes
The synteny block (which etymologically means “on the same ribbon”) is a collection of contiguous genes located on the same chromosome. These block regions have...2624 days ago
Dynamic chromosome breakpoints !!!
Cell division involves the distribution of identical genetic material, DNA, to two daughters’ cells. During this process, duplicated deoxyribonucleic acid (DNA) goes t...3567 days ago
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Bookmarks
Nucl2Vec: Local alignment of DNA sequences using Distributed Vector Representation
We demonstrate a novel approach forlocal alignment of DNA reads with respect to reference genome.For this process we have used Skip-gram model for creatingencoding(Nucl2Vec)...1160 days ago
Rdatamining.com : R and Data Mining
This website presents examples, documents and resources on data mining with R. Documents on using R for data mining are available to download for non-commercial personal use...3930 days ago
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Files
Regular Expression Cheat Sheet
The Regular Expression are the sole of Perl language, and for bioinformatician it is just a magical stick to resolve gingatic string data. We did not find any good and user...3967 days ago
- In an attempt to find a good Linux reference for bioinformatician and BOL readers, I was unsuccessful at finding a decent one on the Internet. So, we decided to make a cheat sheet for biological programmers.
3967 days ago
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Discussion topics
- Like in case of plant genomes where nature of genome is too complex and huge in size to accomplish complete de novo assembly by current sequencing technology. What would be alternate solution? Can we live in reference free world?
3959 days ago
Pages
Bio++ : C Language libraries for your biological need
C has always been a language that never attempts to tie a programmer down - it allows for easy implementation, it comes with a genuinely useful standard library that can its...3962 days ago
- Ruby was created by Yukihiro Matsumoto, who wished to create a new language that balanced functional programming with imperative programming Ruby is a dynamic, reflective,...
3962 days ago
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Top-level pages
- "Bioinformatics is a science of biological predictions and analysis" -- Jitendra Narayan "The mathematical, statistical and computing methods that aim to solve biologi...
3962 days ago
Hidden Markov Models, Viterbi Algorithm, Markov Chain Exploration with script
Hidden Markov Models, the Viterbi Algorithm, and CpG Islands (in VB6) Problem : The CG island is a stretch of DNA (usually longer than 200 bases) in which the frequency of...3839 days ago
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Wire posts
News
- The ongoing genomic research in USA contributed $31 billion to the U.S. gross national product and helped support 152,000 jobs. Reference: http://www.unitedformedicalresearch.com/wp-content/uploads/2013/06/The-Impact-of-Genomics-on-the-US-Economy.pdf
3967 days ago
Vaccination can be dangerous sometimes !!!
It is always believed that vaccination is permanent cure from specific diseases, but recent finding suggest something else. A group of scientist led by Surender Khurana disc...3909 days ago
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Opportunity posts
2013 NextGen Genomics & Bioinformatics Technologies (NGBT) Conference, New Delhi, INDIA
2013 NextGen Genomics & Bioinformatics Technologies (NGBT) Conference SciGenom Research Foundation (SGRF) and Institute of Genomics and Integrative Biology (IGIB) are...3937 days ago
- PhD position in biochemistry towards bioinformatics at the Department of Biochemistry and Biophysics. Reference number: SU FV-2293-13. Deadline for application: September 10...
3911 days ago
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ResearchLabs posts
- PIT Bioinformatics Group solves problems in bioinformatics and computational biology. Recent developed online tools: - Budapest Reference Connectome: View a parametrizab...
3260 days ago
- The laboratory is focused on the discovery and analysis of structural variation (SVs) from genomic sequence data. As part of the 1000 Genomes Project and other endeavors, we...
3007 days ago
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Bio-Scripts
Download the genome from NCBI using bash script/command
#!/bin/bash # Download the genome from NCBI using command # Create a Directory mkdir genome cd genome # Look for genome assembly summary and extract the URL # US...2546 days ago
Genetic Algorithms demonstration with word DNA in Perl
#!/usr/bin/perl -w # GA demonstration with word DNA (512 bits) use strict; use Data::Dumper; # individuals in the population my $popsize = 1024; # a good starti...2386 days ago
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Groups
BioJava is an open-source project dedicated to providing a Java framework for processing biological data. It provides analytical and statistical routines, parsers for common...3917 days ago
Tags
RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
Alonge M, Soyk S, Ramakrishnan S, Wang X, Goodwin S, Sedlazeck FJ, Lippman ZB, Schatz MC: Fast and accurate reference-guided scaffolding of draft genomes. bioRxiv 2019. RaGOO is a tool for coalescing genome assembly contigs into pseudochromosomes via minimap2 alignments to a close...Tags: RaGOO, Fast, Reference-Guided, Scaffolding, Genome, Assembly, Contigs
1859 days ago
Comments
Comment on "Benchmarking Perl Module !"
Benchmarking a Perl module involves measuring the performance of the module in terms of its execution time and memory usage. This can be done using the P...430 days ago
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 assembl...430 days ago
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