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  2. Binary Alignment Map - Wikipedia

    en.wikipedia.org/wiki/Binary_Alignment_Map

    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 ...

  3. SAMtools - Wikipedia

    en.wikipedia.org/wiki/SAMtools

    samtools view -bS sample.sam > sample.bam. Convert a sam file into a bam file. The -b option compresses or leaves compressed input data. samtools view sample_sorted.bam "chr1:10-13" Extract all the reads aligned to the range specified, which are those that are aligned to the reference element named chr1 and cover its 10th, 11th, 12th or 13th ...

  4. SAM (file format) - Wikipedia

    en.wikipedia.org/wiki/SAM_(file_format)

    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] 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 ...

  5. BAM (file format) - Wikipedia

    en.wikipedia.org/?title=BAM_(file_format...

    BAM (file format) Add languages. Add links. Article; ... Print/export Download as PDF; Printable version; In other projects

  6. Sequence analysis - Wikipedia

    en.wikipedia.org/wiki/Sequence_analysis

    The output from this step, that is, the aligned reads, are stored in compatible file formats known as SAM, which contains information about the reference genome as well as individual reads. Alternatively, BAM file formats are preferred as they use much less desk or storage space. [14]

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    Due to popular demand, the "Don't Give a Sheet" template is now available for purchase on Shopify. A bride and groom found an "insane but practical" way to narrow down their wedding invitees.

  8. List of open-source bioinformatics software - Wikipedia

    en.wikipedia.org/wiki/List_of_open-source...

    Utilities for interacting with high-throughput sequencing data and alignments in sam/bam format Unix/Linux: MIT: Collaborative project SOAP Suite: Suite of tools for assembly, alignment, and analysis of short read next generation sequencing data Unix/Linux, macOS: GPL: BGI: Staden Package

  9. BLAST (biotechnology) - Wikipedia

    en.wikipedia.org/wiki/BLAST_(biotechnology)

    Input sequences can then be mapped very quickly, and output is typically in the form of a BAM file. Example alignment programs are BWA , SOAP , and Bowtie . For protein identification, searching for known domains (for instance from Pfam ) by matching with Hidden Markov Models is a popular alternative, such as HMMER .

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