biochem218.stanford.edu - Excellent article to introduce different sequencing methods along with tools for de novo assembly of sequencing reads and their relevant references.
Title: Comparison of Short Read De Novo Alignment Algorithms
Author: Nikhil Gopal
Research Topics:
High Throughput Sequencing Analysis
Comparative Genomics
Identification and Annotation of Non-coding RNAs
Bioinformatic Analysis and System Biology of Viruses
Coevolution of Proteins and RNAs
Algorithmic...
github.com - GraphMap is a novel mapper targeted at aligning long, error-prone third-generation sequencing data.It is designed to handle Oxford Nanopore MinION 1d and 2d reads with very high sensitivity and accuracy, and also presents a significant...
apps.bioconnector.virginia.edu - Coverage / Read Count Calculator
Calculate how much sequencing you need to hit a target depth of coverage (or vice versa).
Instructions: set the read length/configuration and genome size, then select what you want to calculate.
Written by Stephen...
sourceforge.net - Grinder is a versatile program to create random shotgun and amplicon sequence libraries based on DNA, RNA or proteic reference sequences provided in a FASTA file.
Grinder can produce genomic, metagenomic, transcriptomic, metatranscriptomic,...
github.com - Long-read sequencing technologies have become increasingly popular in genome projects due to their strengths in resolving complex genomic regions. As a leading model organism with small genome size and great biotechnological importance, the budding...
genohub.com - The right sequencing instrument for your study depends on your project goal. Setting aside turnaround time and price, it essentially comes down to the numbers of reads and read length you need for your experiment. Below, we've described and compared...