Tools to detect synteny blocks regions among multiple genomes
...exercises/gf1_output_5.html), Ensembl 'SyntenyView' shows conservation of large-scale gene order between species pairs. A brief summary of the calculation method appears at the bottom...2639 days ago
2835 days ago
molinspiration: broad range of cheminformatics software tools supporting molecule manipulation
...nipulation and processing, including SMILES and SDfile conversion, normalization of molecules, generation of tautomers, molecule fragmentation, calculation of various molecular properti...1961 days ago
Check the Size of a directory & Free disk space.
...tal size of all the files that exist in the current directory.$ du --exculde=mp3Several times it required to exclude some directory in our size calculation. In such cases the above comm...3731 days ago
3975 days ago
Useful Publications and Websites for Deep Sequencing Data Analysis
...the String Graph Assembler (SGA), which assembled a human genome in less than 6 days using 54 Gb of RAM and a 123-processor compute cluster for calculation of an FM-index of the 1.2 bil...3808 days ago
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1633 days ago
Tags: Gepard, calculation, dotplots, sequences, chromosomes, bacterial, genomes
1743 days ago
mosdepth: fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
mosdepth can output: per-base depth about 2x as fast samtools depth--about 25 minutes of CPU time for a 30X genome.mean per-window depth given a window size--as would be used for CNV calling.the mean per-region given a BED file of regions.a distribution of proportion of bases covered at or above...Tags: mosdepth, fast, BAM, CRAM, depth, calculation, WGS, exome, target, sequencing
1660 days ago
Comment on "A quick guide to Phred scaling"
...esponds to a probability of error of 1 in 100, while a Phred score of 30 corresponds to a probability of error of 1 in 1000. Quality score calculation: The Phred score for each bas...444 days ago