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Binary Alignment Map (BAM) is the comprehensive raw data of genome sequencing; [1] it consists of the lossless, compressed binary representation of the Sequence Alignment Map-files. [2] [3] BAM is the compressed binary representation of SAM (Sequence Alignment Map), a compact and index-able representation of nucleotide sequence alignments. [4]
samtools sort -m 5000000 unsorted_in.bam sorted_out. Read the specified unsorted_in.bam as input, sort it in blocks up to 5 million k (5 Gb) [units verification needed] and write output to a series of bam files named sorted_out.0000.bam, sorted_out.0001.bam, etc., where all bam 0 reads come before any bam 1 read, etc. [verification needed] index
The SAM format consists of a header and an alignment section. [1] The binary equivalent of a SAM file is a Binary Alignment Map (BAM) file, which stores the same data in a compressed binary representation. [4]
Binary angular measurement (BAM) [1] (and the binary angular measurement system, BAMS [2]) is a measure of angles using binary numbers and fixed-point arithmetic, in which a full turn is represented by the value 1. The unit of angular measure used in those methods may be called binary radian (brad) or binary degree.
FASTQ format is a text-based format for storing both a biological sequence ... PacBio HiFi reads, which are typically stored in SAM/BAM format, use the Sanger ...
The bitmap was contained in 3 bytes for Commodore 1541 format (single-sided) disks because it had 17 to 20 sectors per track (note 3 bytes can hold at least 20 bits). [6] Similarly, the Commodore 1571 used 3 bytes for the bitmap of each track, but the BAM was twice the size because there were twice as many tracks when formatted as double-sided. [7]
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The preferred data format for files submitted to the SRA is the BAM format, which is capable of storing both aligned and unaligned reads. [23] Internally the SRA relies on the NCBI SRA Toolkit, used at all three INSDC member databases, to provide flexible data compression, API access and conversion to other formats such as FASTQ. [22]