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| − | = BLAST for dummies = | + | #<span style="font-size:large;">[[BLAST tutorial|BLAST tutorial]]</span> |
| − | | + | #<span style="font-size:large;">[[PacBio sequencing|PacBio sequencing]]</span> |
| − | == Sequence similarity searches: queries and hits ==
| + | #[[RNASeq_and_differential_gene_expression_analysis|<span style="font-size:large;">RNASeq and differential gene expression analysis</span>]] |
| − | | + | #<span style="font-size:large;">[[Amplicon sequencing|Amplicon sequencing]]</span> |
| − | == The BLAST database ==
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| − | | |
| − | == Aligning query and hit sequences ==
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| − | | |
| − | == Understanding the BLAST output ==
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| − | | |
| − | = Measuring BLAST hits =
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| − | | |
| − | == Similarity: bitscores == | |
| − | | |
| − | == Significance: E-values == | |
| − | | |
| − | == Similarity vs. significance ==
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| − | | |
| − | = blastn vs. blastp =
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| − | | |
| − | = Similarity, homology and orthology =
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| − | | |
| − | = Improving BLAST hits =
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| − | | |
| − | == Adjusting BLAST search parameters ==
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| − | | |
| − | == Reducing the database size ==
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| − | | |
| − | == Increasing the quality of the alignment ==
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| − | | |
| − | == Using addition positional information ==
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| − | | |
| − | == Adding query sequences ==
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| − | | |
| − | = How to run BLAST =
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| − | == Running BLAST on the NCBI website ==
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| − | | |
| − | == Running BLAST on the UoO Lifeportal ==
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| − | | |
| − | == Running BLAST manually from the command line ==
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| − | | |
| − | = Computer directories and the PATH =
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| − | | |
| − | == The current directory ==
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| − | == The PATH ==
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| − | | |
| − | = Running BLAST from the command-line =
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| − | | |
| − | == A simple BLAST search ==
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| − | | |
| − | == Creating a custom BLAST database ==
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| − | | |
| − | = General tips for using BLAST on Abel =
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| − | | |
| − | == Submit a BLAST search job script ==
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| − | | |
| − | == Use “qlogin” to directly interact with Abel during job execution ==
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| − | | |
| − | == Use the “freebee” system ==
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