July 2003
Intermediate to advanced
368 pages
13h 44m
English
Content preview from BLAST
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This is the Title of the Book, eMatter Edition
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319
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Index
Numbers
3-prime (3´), 20, 132
5-prime (5´), 20
Synbols
* (asterisk), 149, 184
[] (brackets), 192, 257
: (colon), 169, 244
- (dash)
NCBI display formats, 292, 294
NCBI-BLAST, 229
PHI-BLAST, 257
PSI-BLAST, 258
Unix and, 194
xdformat and xdget, 269
. (dot), 14, 292
> (greater than sign), 5, 188
() parentheses, 203
| (pipe), 5, 189, 193, 292
+ (plus), 292
" (quotes), 231
A
Abstract Syntax Notation One (see ASN.1)
Accelrys package, 211
accession number
blastn and, 181
FASTA files and, 208
fastacmd parameter, 243, 244
formatdb parameter, 242
megablast parameter, 247
NCBI identifier, 5
one-to-one mapping, 207
public databases and, 189
sequence records and, 172, 202, 203
xdformat parameter, 282
xdget parameter, 286
actual length, 99, 105
adenine (A), 20, 22
affine gaps
blastall parameter, 236
defined, 51
megablast parameter, 246, 247, 249
AG-BLAST, 224, 225
α-helix, 25
alanine (A), 22
algorithms
alignment, 51, 64, 152
big-O notation, 50
BLAST, 76–87
BLAT, 152
HMMER, 147
(see also two-hit algorithm)
alias databases
features, 195
formatdb and, 193, 196, 240, 241
GI numbers and, 222
WU/NCBI-BLAST differences, 268
alignment
algorithms, 51, 64, 152
alternate views, 13
BLAST reporting, 88, 90–95
blastall parameter, 232
blastpgp parameter,
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O’Reilly covers everything we've got, with content to help us build a world-class technology community, upgrade the capabilities and competencies of our teams, and improve overall team performance as well as their engagement.Julian F.
I wanted to learn C and C++, but it didn't click for me until I picked up an O'Reilly book. When I went on the O’Reilly platform, I was astonished to find all the books there, plus live events and sandboxes so you could play around with the technology.Addison B.
I’ve been on the O’Reilly platform for more than eight years. I use a couple of learning platforms, but I'm on O'Reilly more than anybody else. When you're there, you start learning. I'm never disappointed.Amir M.
I'm always learning. So when I got on to O'Reilly, I was like a kid in a candy store. There are playlists. There are answers. There's on-demand training. It's worth its weight in gold, in terms of what it allows me to do.