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47 ta ish

Ish: Haplotype-resolved chromosome-level genome assembly of an autohexaploid oil camellia tree Camellia osmantha

  1. fastp: an ultra-fast all-in-one FASTQ preprocessor

    Shifu Chen, Yanqing Zhou, Yaru Chen +1

    MaqolaOchiq kirish201828 iqtibos
    ABI

  2. Full-length transcriptome assembly from RNA-Seq data without a reference genome

    Manfred Grabherr, Brian J. Haas, Moran Yassour +18

    MaqolaOchiq kirish201116 iqtibos
    ABI

  3. Fast gapped-read alignment with Bowtie 2

    Ben Langmead, Steven L. Salzberg

    MaqolaOchiq kirish201214 iqtibos
    ABI

  4. KEGG: Kyoto Encyclopedia of Genes and Genomes

    Minoru Kanehisa

    MaqolaOchiq kirish200013 iqtibos
    ABI

  5. Fast and sensitive protein alignment using DIAMOND

    Benjamin Buchfink, Chao Xie, Daniel H. Huson

    Maqola201412 iqtibos
    ABI

  6. Tandem repeats finder: a program to analyze DNA sequences

    Gary Benson

    MaqolaOchiq kirish199910 iqtibos
    ABI

  7. tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence

    Todd M. Lowe, Sean R. Eddy

    MaqolaOchiq kirish19977 iqtibos
    ABI

  8. A fast, lock-free approach for efficient parallel counting of occurrences of <i>k</i> -mers

    Guillaume Marçais, Carl Kingsford

    MaqolaOchiq kirish20117 iqtibos
    ABI

  9. Haplotype-resolved de novo assembly using phased assembly graphs with hifiasm

    Haoyu Cheng, Gregory T. Concepcion, Xiaowen Feng +2

    MaqolaOchiq kirish20217 iqtibos
    ABI

  10. HISAT: a fast spliced aligner with low memory requirements

    Daehwan Kim, Ben Langmead, Steven L. Salzberg

    Maqola20157 iqtibos
    ABI

  11. Improving the Arabidopsis genome annotation using maximal transcript alignment assemblies

    Brian Haas

    MaqolaOchiq kirish20036 iqtibos
    ABI

  12. RepeatModeler2 for automated genomic discovery of transposable element families

    Jullien M. Flynn, Robert Hubley, Clément Goubert +4

    MaqolaOchiq kirish20205 iqtibos
    ABI

  13. InterProScan 5: genome-scale protein function classification

    Philip Jones, David Binns, Hsin-Yu Chang +14

    Maqola20145 iqtibos
    ABI

  14. HiC-Pro: an optimized and flexible pipeline for Hi-C data processing

    Nicolas Servant, Nelle Varoquaux, Bryan R. Lajoie +6

    MaqolaOchiq kirish20154 iqtibos
    ABI

  15. GenomeScope 2.0 and Smudgeplot for reference-free profiling of polyploid genomes

    T. Rhyker Ranallo-Benavidez, Kamil S. Jaroň, Michael C. Schatz

    Maqola20204 iqtibos
    ABI

  16. De novo assembly of the <i>Aedes aegypti</i> genome using Hi-C yields chromosome-length scaffolds

    Olga Dudchenko, Sanjit Singh Batra, Arina D. Omer +8

    Maqola20174 iqtibos
    ABI

  17. Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments

    Neva C. Durand, Muhammad S. Shamim, Ido Machol +4

    Maqola20164 iqtibos
    ABI

  18. KaKs_Calculator 3.0: Calculating Selective Pressure on Coding and Non-Coding Sequences

    Zhang Zhang

    Maqola20224 iqtibos
    ABI

  19. Using RepeatMasker to Identify Repetitive Elements in Genomic Sequences

    Maja Tarailo‐Graovac, Nansheng Chen

    Maqola20094 iqtibos
    ABI

  20. LTR_FINDER: an efficient tool for the prediction of full-length LTR retrotransposons

    Zhigang Xu, Hao Wang

    MaqolaOchiq kirish20073 iqtibos
    ABI

  21. Infernal 1.1: 100-fold faster RNA homology searches

    Eric P. Nawrocki, Sean R. Eddy

    MaqolaOchiq kirish20133 iqtibos
    ABI

  22. AUGUSTUS: a web server for gene prediction in eukaryotes that allows user-defined constraints

    Mario Stanke, Burkhard Morgenstern

    Maqola20053 iqtibos
    ABI

  23. The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla

    Nathalie Choisne, Béatrice Segurens, Patrick Wincker +61

    Maqola20073 iqtibos
    ABI

  24. Camellia as an Oilseed Crop

    Haiying Liang, Bing-Qing Hao, Guo-Chen Chen +2

    MaqolaOchiq kirish20173 iqtibos
    ABI

  25. The complex hexaploid oil‐Camellia genome traces back its phylogenomic history and multi‐omics analysis of Camellia oil biosynthesis

    Huaguo Zhu, Fuqiu Wang, Zhongping Xu +20

    Maqola20243 iqtibos
    ABI