String graph based genome assembly software and tools !
...: Fast String Graph The new integrated assembler has been assessed on a standard benchmark, showing that fast string graph (FSG) is significantly faster than SGA while maintaining a...2328 days ago
Basic command-line to run BLAST
...tell blast about our database. BLAST needs to do some pre-work on the database file prior to searching. This helps to make the software work a lot faster. Because you installed your o...2243 days ago
3662 days ago
Kraken: ultrafast metagenomic sequence classification using exact alignments
...latively slow and computationally expensive, forcing researchers to use faster abundance estimation programs...se pair reads at a rate of over 4.1 million reads per minute, 909 times faster than Megablast and 11 times f...2868 days ago
3950 days ago
Most Commonly used Awk by Bioinformatician
...uff | grep | sed | cut...' with a single call to awk. For a simple script, most of the timelag is in loading these apps into memory, and it's much faster to do it all with one. This i...3911 days ago
List of Bioinformatics Software Tools for Next Generation Sequencing
...ives and better sensitivity compared to results obtained from other aligners Aligns exome data and performs variant calling an average of 3 times faster than alternative pipelines A...2908 days ago
4273π: Bioinformatics education on low cost ARM hardware
...course 4273π Bioinformatics for Biologists is embedded.Though far slower than current desktop and laptop computers, the Raspberry Pi is notably faster than the Cray 1 supercomputer...3897 days ago
3761 days ago
In need of Computing Resources???
...ject.eu/gromacs ), especially for GROMACS application. Write back if you have any infrastructure requirement for your GROMCAS code to run more faster.3490 days ago
Computational Biology in the 21st Century: Making Sense out of Massive Data
...strip advances in computing power to perform current methods of analysis. Extracting new science from these massive datasets will require not only faster computers; it will require sm...3901 days ago
Dr. Ken Buetow: IS & Personalized Medicine Lecture-Part 1
...n are being fundamentally altered by the capacity to routinely perform comprehensive molecular characterization. Nowhere is this change happening faster than in the field of cancer....3869 days ago
Genetic Algorithms demonstration with word DNA in Perl
...rent2->{dna}; # note we do operations on BYTES, not BITS. This is because bytes # are the unit of information (and preserving them is the faster # breeding method) fore...2371 days ago
Tadpole is 250x faster than SPADes assembler !
...ll be generated in same pass as kmer counts. Much faster but counts will be lower, by...-allocate memory rather than dynamically growing; faster and more memory-efficient. A...975 days ago
DFAST: a flexible prokaryotic genome annotation pipeline for faster genome publication
We developed a prokaryotic genome annotation pipeline, DFAST, that also supports genome submission to public sequence databases. DFAST was originally started as an on-line annotation server, and to date, over 7,000 jobs have been processed since its first launch in 2016. Here, we present a newly ...Tags: DFAST, flexible, prokaryotic, genome, annotation, pipeline, faster, genome, publication
2363 days ago
Comment on "URMAP, an ultra-fast read mapper"
...ust be in FASTQ format or gzip-compressed FASTQ format. It is generally faster to use uncompressed reads bec...The -veryfast option specifies a variant mapping algorithm which is ~3x faster but somewhat less accurate. T...1282 days ago
Comment on "Setting up autoConTAMPR !"
...I/IS/ISHIGAKI/Text-CSV-2.00.tar.gzWelcome to Text::CSV (v.2.00)=============================If you install Text::CSV_XS v.1.02, it makes Text::CSV faster.Checking if your kit is compl...1441 days ago