BOL

Genome browsers are useful not only for showing final results but also for improving analysis protocols, testing data quality, and generating result drafts. Its integration in analysis pipelines allows the optimization of parameters, which...

TelomereHunter is a tool for estimating telomere content from human whole-genome sequencing data. It is designed to take BAM files from a tumor and a matching control sample as input. However, it is also possible to run TelomereHunter with one input...

karyoploteR is an R package to create karyoplots, that is, representations of whole genomes with arbitrary data plotted on them. It is inspired by the R base graphics system and does not depend on other graphics packages. The aim of karyoploteR...

Understanding lastz http://www.bx.psu.edu/~rsharris/rsharris_phd_thesis_2007.pdf

zPicture is a dynamic alignment and visualization tool that is based on blastz alignment program utilized by PipMaker. zPicture alignments can be automatically submitted to rVista 2.0 to identify conserved transcription factor binding...

The study of biological pathways is a key to understand the different processes inside a cell: proteins exert their function not in isolation but in a tightly controlled network of interactions and reactions. Activation of a pathway typically leads...

samtools index your.bamsamtools view your.bam "chr5:200-6000" > output.bam That would output all reads in chr5 between 200-6000 bp.

 I want to extract all the reads mapped at chr5: 200-6000. 

Network analysis is any structured technique used to mathematically analyze a circuit (a “network” of interconnected components). The Network analysis provides the ability to quantify associations between individuals, which...

MGcV is an interactive web-based visalization tool tailored to facilitate small scale genome analysis. To start using MGcV: Supply your genes/genomic segments/phylogenetic tree of interest in the input-box by selecting the type of identifier...

Learn D3.js - https://leanpub.com/D3-Tips-and-Tricks/read #D3dotJS #visualisation #plot

Writing is more effective way to learn than reading. While writing you get more information and hence can improve your personal skills and knowledge. Every student likes to get a good essay, for getting good essay students must follow the some...

To do sam to bam conversion, follow the following commands :-  Code: $ samtools view -b -S file.sam > file.bam Then you will need to use  Code: $ samtools sort file.bam file-sorted followed by Code: $ samtools index...