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1 categories:
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2 - Data Managers
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3 description: Pre-generate indexes for Salmon
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4 homepage_url: https://github.com/COMBINE-lab/salmon
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5 long_description: |
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6 Salmon is a wicked-fast program to produce a highly-accurate,
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7 transcript-level quantification estimates from RNA-seq data.
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8 Salmon achieves is accuracy and speed via a number of different innovations,
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9 including the use of quasi-mapping (accurate but fast-to-compute proxies for traditional read alignments),
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10 and massively-parallel stochastic collapsed variational inference.
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11 The result is a versatile tool that fits nicely into many differnt pipelines.
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12 For example, you can choose to make use of our quasi-mapping algorithm by providing
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13 Salmon with raw sequencing reads, or, if it is more convenient, you can provide
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14 Salmon with regular alignments (e.g. an unsorted BAM file produced with your favorite aligner),
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15 and it will use the same wicked-fast, state-of-the-art inference algorithm to estimate transcript-level abundances for your experiment.
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16 name: data_manager_salmon_index_builder
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17 owner: iuc
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18 remote_repository_url: https://github.com/ieguinoa/data_manager_salmon_index_builder
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19 type: unrestricted
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