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Full-Text Articles in Genetics and Genomics
Undergraduates Contain Multitudes: Course-Based Metagenomics Analysis Using Dna Subway Purple Line, Ray A. Enke
Undergraduates Contain Multitudes: Course-Based Metagenomics Analysis Using Dna Subway Purple Line, Ray A. Enke
Ray Enke Ph.D.
No abstract provided.
Fastqc Analysis & Hisat Alignments Using Cyverse (Part 2), Ray A. Enke
Fastqc Analysis & Hisat Alignments Using Cyverse (Part 2), Ray A. Enke
Ray Enke Ph.D.
- view the output files of FastQC analysis
- create custom data tracks from HISAT alignment files for visualization in the UCSC Genome Browser
Fastqc Analysis & Hisat Alignments Using Cyverse (Part 1), Ray A. Enke
Fastqc Analysis & Hisat Alignments Using Cyverse (Part 1), Ray A. Enke
Ray Enke Ph.D.
These Are Not The K-Mers You Are Looking For: Efficient Online K-Mer Counting Using A Probabilistic Data Structure, Qingpeng Zhang, Jason Pell, Rosangela Canino-Koning, Adina Chuang Howe, C. Titus Brown
These Are Not The K-Mers You Are Looking For: Efficient Online K-Mer Counting Using A Probabilistic Data Structure, Qingpeng Zhang, Jason Pell, Rosangela Canino-Koning, Adina Chuang Howe, C. Titus Brown
Adina Howe
K-mer abundance analysis is widely used for many purposes in nucleotide sequence analysis, including data preprocessing for de novo assembly, repeat detection, and sequencing coverage estimation. We present the khmer software package for fast and memory efficient online counting of k-mers in sequencing data sets. Unlike previous methods based on data structures such as hash tables, suffix arrays, and trie structures, khmer relies entirely on a simple probabilistic data structure, a Count-Min Sketch. The Count-Min Sketch permits online updating and retrieval of k-mer counts in memory which is necessary to support online k-mer analysis algorithms. On sparse data sets this …