Results for "Memory"
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 sff. Advantage of binary files is that they occupy less space in memory with maximum information content. Link fo...3912 days ago
Most Commonly used Awk by Bioinformatician
...lace a pipeline of 'stuff | 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 i...3905 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
...han 6 days using 54 Gb of RAM and a 123-processor compute cluster for calculation of an FM-index of the 1.2 billion reads] Readjoiner: a fast and memory efficient string graph-based...3772 days ago
Next generation sequencing in R or bioconductor environment
...strings package from Bioconductor provides an advanced environment for efficient sequence management and analysis in R. It contains many speed and memory effective string containers,...3617 days ago
Commercial and public next-gen-seq (NGS) software
...Homer, Stanley F. Nelson and Barry Merriman at UCLA.Bowtie - Ultrafast, memory-efficient short read aligner....25 million reads per hour on a typical workstation with 2 gigabytes of memory. Uses a Burrows-Wheeler-Trans...3511 days ago
Software packages for next gen sequence analysis
...Barry Merriman at UCLA. * Bowtie - Ultrafast, memory-efficient short read aligner....r on a typical workstation with 2 gigabytes of memory. Uses a Burrows-Wheeler-Trans...to reference genome assemblies; in a fast and memory-efficient manner. Robust to I...3235 days ago
- ...stdout.fa Reverse-complement reads: reformat.sh in=x.fq out=y.fq rcomp For reformatting a file with very long sequences, Reformat will need more memory; just add the additional flag...
2706 days ago
- ...at of other systems. It waits for jobs to be cleared before scheduling the high priority job. It also does kill and requeue on memory rather than just on core count. Memory Memory requests are sacrosanc...
2907 days ago
- ...r command df — show disk usage du — show directory space usage free — show memory and swap usage &nb...
2866 days ago
Genome Assembly Tools and Software - PART1 !!
...For the sake of computational memory saving and convenience of dat...g Gapless Reads A fast and memory-efficient method for haplotyp...is both multi-core aware and memory efficient, allowing it to han...ortex is an efficient and low-memory software framework for analys...2678 days ago
