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Fast gapped read alignment with bowtie 2
Fast gapped read alignment with bowtie 2








fast gapped read alignment with bowtie 2

130-131.īankevich, A., et al., SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. Bowtie2 Bowtie2 supports gapped alignment with affine gap penalties, without restrictions on the number of gaps and gap lengths. Daub, SAMStat: monitoring biases in next generation sequencing data. (2013) Aligning sequence reads, clone sequences and assembly. Langmead, B., et al., Scaling read aligners to hundreds of threads on general-purpose processors. (2012) Fast gapped-read alignment with Bowtie 2. In this mode, it searches for alignments involving all of the read characters.

fast gapped read alignment with bowtie 2

Salzberg, Fast gapped-read alignment with Bowtie 2. Bowtie2 supports end-to-end read alignment mode by default. 10-12.Īndrews, S., FastQC: a quality control tool for high throughput sequence data. Martin, M., Cutadapt removes adapter sequences from high-throughput sequencing reads. Krueger, F., Trim Galore: a wrapper tool around Cutadapt and FastQC to consistently apply quality and adapter trimming to FastQ files, with some extra functionality for MspI-digested RRBS-type (Reduced Representation Bisufite-Seq) libraries.










Fast gapped read alignment with bowtie 2