Difference between revisions of "Main Page"
From mn/ibv/bioinfwiki
| Line 1: | Line 1: | ||
| − | = BLAST = | + | = BLAST for dummies = |
| − | + | == Sequence similarity searches: queries and hits == | |
| − | == BLAST | + | == The BLAST database == |
| − | + | == Aligning query and hit sequences == | |
| − | == BLAST | + | == Understanding the BLAST output == |
| − | + | = Measuring BLAST hits = | |
| − | = | + | == Similarity: bitscores == |
| − | + | == Significance: E-values == | |
| + | == Similarity vs. significance == | ||
| + | = blastn vs. blastp = | ||
| − | + | = Similarity, homology and orthology = | |
| − | + | = Improving BLAST hits = | |
| − | + | == Adjusting BLAST search parameters == | |
| − | + | == Reducing the database size == | |
| − | + | == Increasing the quality of the alignment == | |
| − | + | == Using addition positional information == | |
| − | + | == Adding query sequences == | |
| − | + | = How to run BLAST = | |
| − | + | == Running BLAST on the NCBI website == | |
| − | + | == Running BLAST on the UoO Lifeportal == | |
| − | + | == Running BLAST manually from the command line == | |
| − | + | = Computer directories and the PATH = | |
| − | - | + | == The current directory == |
| + | |||
| + | == The PATH == | ||
| + | |||
| + | = Running BLAST from the command-line = | ||
| + | |||
| + | == A simple BLAST search == | ||
| + | |||
| + | == Creating a custom BLAST database == | ||
| + | |||
| + | = General tips for using BLAST on Abel = | ||
| + | |||
| + | == Submit a BLAST search job script == | ||
| + | |||
| + | == Use “qlogin” to directly interact with Abel during job execution == | ||
| + | |||
| + | == Use the “freebee” system == | ||
