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sort samtools sort -o sorted_out unsorted_in.bam. Read the specified unsorted_in.bam as input, sort it by aligned read position, and write it out to sorted_out. Type of output can be either sam, bam, or cram, and will be determined automatically by sorted_out's file-extension. samtools sort -m 5000000 unsorted_in.bam sorted_out
data-sort-type:text - Sort the following table to see an example of the alphabetic sort order. Note that sorting is case-insensitive: the two-character entries such as A1 demonstrate that A and a are at the same position.
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] SAM files can be analysed and edited with the software SAMtools. [1] The header section must be prior to the alignment section if it is present.
For data requests that fall between the table's samples, an interpolation algorithm can generate reasonable approximations by averaging nearby samples." [8] In data analysis applications, such as image processing, a lookup table (LUT) can be used to transform the input data into a more desirable output format. For example, a grayscale picture ...
Pileup format is a text-based format for summarizing the base calls of aligned reads to a reference sequence. This format facilitates visual display of SNP/indel calling and alignment.
A database index is a data structure that improves the speed of data retrieval operations on a database table at the cost of additional writes and storage space to maintain the index data structure. Indexes are used to quickly locate data without having to search every row in a database table every time said table is accessed.
Natural sort order has been promoted as being more human-friendly ("natural") than machine-oriented, pure alphabetical sort order. [1] For example, in alphabetical sorting, "z11" would be sorted before "z2" because the "1" in the first string is sorted as smaller than "2", while in natural sorting "z2" is sorted before "z11" because "2" is ...
As a baseline algorithm, selection of the th smallest value in a collection of values can be performed by the following two steps: . Sort the collection; If the output of the sorting algorithm is an array, retrieve its th element; otherwise, scan the sorted sequence to find the th element.