Difference between revisions of "Main Page"
From mn/ibv/bioinfwiki
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=== [[BLAST for dummies#Sequence similarity searches: queries and hits|Sequence similarity searches: queries and hits]] === | === [[BLAST for dummies#Sequence similarity searches: queries and hits|Sequence similarity searches: queries and hits]] === | ||
− | === [[ | + | === [[BLAST for dummies#The BLAST database|The BLAST database]] === |
− | === [[ | + | === [[BLAST for dummies#Aligning query and hit sequences|Aligning query and hit sequences]] === |
− | === [[ | + | === [[BLAST for dummies#Understanding the BLAST output|Understanding the BLAST output]] === |
== [[Measuring BLAST hits|Measuring BLAST hits]] == | == [[Measuring BLAST hits|Measuring BLAST hits]] == | ||
− | === [[ | + | === [[Measuring BLAST hits#Similarity: bitscores|Similarity: bitscores]] === |
− | === [[ | + | === [[Measuring BLAST hits#Significance: E-values|Significance: E-values]] === |
− | === [[ | + | === [[Measuring BLAST hits#Similarity vs. significance.C2.A0|Similarity vs. significance]] === |
== [[Blastn vs. blastp|blastn vs. blastp]] == | == [[Blastn vs. blastp|blastn vs. blastp]] == | ||
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== [[Improving BLAST hits|Improving BLAST hits]] == | == [[Improving BLAST hits|Improving BLAST hits]] == | ||
− | === [[ | + | === [[Improving BLAST hits#Adjusting BLAST search parameters|Adjusting BLAST search parameters]] === |
− | === [[ | + | === [[Improving BLAST hits#Reducing the database size|Reducing the database size]] === |
− | === [[ | + | === [[Improving BLAST hits#Increasing the quality of the alignment|Increasing the quality of the alignment]] === |
− | === [[ | + | === [[Improving BLAST hits#Using addition positional information|Using addition positional information]] === |
− | === [[ | + | === [[Improving BLAST hits#Adding query sequences|Adding query sequences]] === |
== [[How to run BLAST|How to run BLAST]] == | == [[How to run BLAST|How to run BLAST]] == | ||
− | === [[ | + | === [[How to run BLAST#Running BLAST on the NCBI website|Running BLAST on the NCBI website]] === |
− | === [[ | + | === [[How to run BLAST#Running BLAST on the UoO Lifeportal|Running BLAST on the UoO Lifeportal]] === |
− | === [[ | + | === [[How to run BLAST#Running BLAST manually from the command line|Running BLAST manually from the command line]] === |
== [[Computer directories and the PATH|Computer directories and the PATH]] == | == [[Computer directories and the PATH|Computer directories and the PATH]] == | ||
− | === [[ | + | === [[Computer directories and the PATH#The current directory|The current directory]] === |
− | === [[ | + | === [[Computer directories and the PATH#The PATH|The PATH]] === |
== [[Running BLAST from the command-line|Running BLAST from the command-line]] == | == [[Running BLAST from the command-line|Running BLAST from the command-line]] == | ||
− | === [[ | + | === [[Running BLAST from the command-line#A simple BLAST search|A simple BLAST search]] === |
− | === [[ | + | === [[Running BLAST from the command-line#Creating a custom BLAST database|Creating a custom BLAST database]] === |
== [[General tips for using BLAST on Abel|General tips for using BLAST on Abel]] == | == [[General tips for using BLAST on Abel|General tips for using BLAST on Abel]] == | ||
− | === [[ | + | === [[General tips for using BLAST on Abel#Submit a BLAST search job script|Submit a BLAST search job script]] === |
− | === [[ | + | === [[General tips for using BLAST on Abel#Use .E2.80.9Cqlogin.E2.80.9D to directly interact with Abel during job execution|Use “qlogin” to directly interact with Abel during job execution]] === |
− | === [[ | + | === [[General tips for using BLAST on Abel#Use the .E2.80.9Cfreebee.E2.80.9D system|Use the “freebee” system]] === |
+ | |||
+ | = [[PacBio_sequencing|PacBio sequencing]] = |
Revision as of 14:05, 9 March 2015
Contents
- 1 BLAST: the Basic Local Alignment Search Tool
- 2 PacBio sequencing