Results for "format"
Top-level pages
Structure of Binary files used for storing sequencing data-bam and sff
Many times bioinformatician needs to parse binary files like bam and sf...they occupy less space in memory with maximum information content. Link for those w...ncbi.nlm.nih.gov/Traces/trace.cgi?cmd=show&f=formats&m=doc&s=format#sff...3914 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
...The Sequence Alignment/Map format and SAMtools. Li et al, Bioin...d set of reads. Salmela, Bioinformatics 26(10):1284, 2010. Full Te...profiling. Łabaj et al, Bioinformatics 27:i383 - i391, 2011 Full...-seq reads. Chong et al, Bioinformatics 28(21):2732-7, 2012. Publ...3773 days ago
List of bioinformatics open source projects/software.
...aspx A language-neutral bioinformatics toolkit built using the Mi...//bio4j.com/ Bio4j is a bioinformatics platform and graph based d...tools and techniques in Bioinformatics. It uses Jenkins and its p...ials PromKappa http://xbioinformatics.wordpress.com/tag/promkapp...3751 days ago
List of In-silico Binding Site Prediction Tools
...PROSURFER: http://163.43.140.95/top contains information about structural similarit...integrates protein domain-domain interaction information from 3DID and sequence ali...pth based clustering that uses neighbourhood information. Depth is an important par...3738 days ago
Next generation sequencing in R or bioconductor environment
...extensible to store additional information about sequence ranges, suc...ifiers (sequence space), strand information and annotation data. Docum...ng a universal standard alignment format, and is now supported by a wi...short read alignment data in BAM format (via Rsamtools) and associati...3619 days ago
Commercial and public next-gen-seq (NGS) software
...It supports Illumina, SOLiD and Roche-FLX data formats and allows the user to modul...nd Zhenyu Xuan at CSHL. (published in BMC Bioinformatics). POSIX OS required. SeqMa...nd Zhenyu Xuan at CSHL. (published in BMC Bioinformatics)Short read aligner called...3513 days ago
- ...al sam scarf (an old Illumina format) bam (if samtools is installe...the middle of a pipeline for format conversion. Reformat autodete...orrupted interleaved files Reformat is compatible with any platfo...am file and pipe out fasta: reformat.sh in=stdin.sam.gz out=stdout...
2708 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...equencing and microarray file format as well as text files Can in...alignment can be SOAP or SAM formats, users must also give raw re...CF Output: “The output format is a single row for each puta...easure for LD, threshold plot format, color of SNPs, and chose to...2903 days ago
- ...st items in current directory and show in long format to see perimissions, size, an...bsp; finger user — display information about user &nbs...s whois domain — get information for domain &nbs...
2868 days ago
- ...nthilalsubhash/367befcf5216be4b1fd9 Information: This script converts Ens...30cb57a29/sample.GTF) file to annotation table format. It generated two files1) Tra...on.txt)2) Gene wise chromosome location with information about genes (Ex: http...
2100 days ago
