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121 ta ish

Ish: High-quality genome of Oreocharis mileensis (Gesneriaceae) provides insights into the adaptation and conservation of highly threatened species in karst region

  1. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

    Alexandros Stamatakis

    MaqolaOchiq kirish201491 iqtibos
    ABI

  2. WorldClim 2: new 1‐km spatial resolution climate surfaces for global land areas

    Stephen E. Fick, Robert J. Hijmans

    Maqola201740 iqtibos
    ABI

  3. IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

    Lam-Tung Nguyen, Heiko A. Schmidt, Arndt von Haeseler +1

    MaqolaOchiq kirish201431 iqtibos
    ABI

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

    Shifu Chen, Yanqing Zhou, Yaru Chen +1

    MaqolaOchiq kirish201828 iqtibos
    ABI

  5. The Sequence Alignment/Map format and SAMtools

    Heng Li, Bob Handsaker, Alec Wysoker +7

    MaqolaOchiq kirish200925 iqtibos
    ABI

  6. The variant call format and VCFtools

    Petr Danecek, Adam Auton, Gonçalo R. Abecasis +10

    MaqolaOchiq kirish201121 iqtibos
    ABI

  7. PLINK: A Tool Set for Whole-Genome Association and Population-Based Linkage Analyses

    Shaun Purcell, Benjamin M. Neale, Katherine EO Todd-Brown +8

    MaqolaOchiq kirish200720 iqtibos
    ABI

  8. Ancient Admixture in Human History

    Nick Patterson, Priya Moorjani, Yontao Luo +6

    MaqolaOchiq kirish201216 iqtibos
    ABI

  9. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism.

    Fumio Tajima

    Maqola198916 iqtibos
    ABI

  10. Fast and sensitive protein alignment using DIAMOND

    Benjamin Buchfink, Chao Xie, Daniel H. Huson

    Maqola201412 iqtibos
    ABI

  11. BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

    Felipe A. Simão, Robert M. Waterhouse, Panagiotis Ioannidis +2

    MaqolaOchiq kirish201512 iqtibos
    ABI

  12. ANGSD: Analysis of Next Generation Sequencing Data

    Thorfinn Sand Korneliussen, Anders Albrechtsen, Rasmus Nielsen

    MaqolaOchiq kirish201411 iqtibos
    ABI

  13. PAML 4: Phylogenetic Analysis by Maximum Likelihood

    Z. Yang

    MaqolaOchiq kirish200711 iqtibos
    ABI

  14. Second-generation PLINK: rising to the challenge of larger and richer datasets

    Christopher Chang, Carson C. Chow, Laurent CAM Tellier +3

    MaqolaOchiq kirish201510 iqtibos
    ABI

  15. Inference of Population Structure using Dense Haplotype Data

    Daniel J. Lawson, Garrett Hellenthal, Simon Myers +1

    MaqolaOchiq kirish20128 iqtibos
    ABI

  16. StringTie enables improved reconstruction of a transcriptome from RNA-seq reads

    Mihaela Pertea, Geo Pertea, Corina Antonescu +3

    MaqolaOchiq kirish20158 iqtibos
    ABI

  17. Inference of Population Splits and Mixtures from Genome-Wide Allele Frequency Data

    Joseph K. Pickrell, Jonathan K. Pritchard

    MaqolaOchiq kirish20127 iqtibos
    ABI

  18. Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments

    Brian J. Haas, Steven L. Salzberg, Wei Zhu +6

    MaqolaOchiq kirish20087 iqtibos
    ABI

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

    Todd M. Lowe, Sean R. Eddy

    MaqolaOchiq kirish19977 iqtibos
    ABI

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

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

    MaqolaOchiq kirish20217 iqtibos
    ABI

  21. Minimap2: pairwise alignment for nucleotide sequences

    Heng Li

    MaqolaOchiq kirish20186 iqtibos
    ABI

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

    Brian Haas

    MaqolaOchiq kirish20036 iqtibos
    ABI

  23. OrthoFinder: phylogenetic orthology inference for comparative genomics

    David Emms, Steven Kelly

    MaqolaOchiq kirish20196 iqtibos
    ABI

  24. Population Genetic Consequences of Small Population Size: Implications for Plant Conservation

    Norman C. Ellstrand, Diane R. Elam

    Maqola19936 iqtibos
    ABI

  25. Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper

    Jaime Huerta‐Cepas, Kristoffer Forslund, Luís Pedro Coelho +4

    MaqolaOchiq kirish20175 iqtibos
    ABI