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Prakitchai Chotewutmontri et al.
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Pedro Patraquim et al.
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Fei Yi et al.
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Ai-Ning Bai et al.
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Na Li et al.
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iTAK: A Program for Genome-wide Prediction and Classification of Plant Transcription Factors, Transcriptional Regulators, and Protein Kinases
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Anireddy S. N. Reddy et al.
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Ben Langmead et al.
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Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
Cole Trapnell et al.
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Edurne Baroja-Fernandez et al.
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Yibo Li et al.
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Lei Wang et al.
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trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
Salvador Capella-Gutierrez et al.
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Fatemeh Rahmani et al.
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Nicholas T. Ingolia et al.
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Ertao Wang et al.
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Yu Zhang et al.
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ME Zanetti et al.
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R Kawaguchi et al.
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RC Edgar
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A Wiese et al.
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GK Pandey et al.
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