Skip to content

Commit aae83b8

Browse files
committed
Update alignment.md
1 parent 5c7df12 commit aae83b8

File tree

1 file changed

+3
-2
lines changed

1 file changed

+3
-2
lines changed

structure/alignment.md

Lines changed: 3 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -59,7 +59,7 @@ algorithms.
5959

6060
The Combinatorial Extension (CE) algorithm was originally developed by
6161
[Shindyalov and Bourne in
62-
1998](http://peds.oxfordjournals.org/content/11/9/739.short) [![Version](http://img.shields.io/badge/in-pubmed-blue.svg?style=flat)](http://www.ncbi.nlm.nih.gov/pubmed/9796821).
62+
1998](http://peds.oxfordjournals.org/content/11/9/739.short) [![pubmed](http://img.shields.io/badge/in-pubmed-blue.svg?style=flat)](http://www.ncbi.nlm.nih.gov/pubmed/9796821).
6363
It works by identifying segments of the two proteins with similar local
6464
structure, and then combining those to try to align the most residues possible
6565
while keeping the overall RMSD of the superposition low.
@@ -103,7 +103,8 @@ BioJava class: [org.biojava.bio.structure.align.ce.CeCPMain](http://www.biojava.
103103

104104
This is a Java implementation of the original FATCAT algorithm by [Yuzhen Ye
105105
& Adam Godzik in
106-
2003](http://bioinformatics.oxfordjournals.org/content/19/suppl_2/ii246.abstract).
106+
2003](http://bioinformatics.oxfordjournals.org/content/19/suppl_2/ii246.abstract)
107+
[![pubmed](http://img.shields.io/badge/in-pubmed-blue.svg?style=flat)](http://www.ncbi.nlm.nih.gov/pubmed/14534198).
107108
It performs similarly to CE for most proteins. The 'rigid' flavor uses a
108109
rigid-body superposition and only considers alignments with matching sequence
109110
order.

0 commit comments

Comments
 (0)
pFad - Phonifier reborn

Pfad - The Proxy pFad of © 2024 Garber Painting. All rights reserved.

Note: This service is not intended for secure transactions such as banking, social media, email, or purchasing. Use at your own risk. We assume no liability whatsoever for broken pages.


Alternative Proxies:

Alternative Proxy

pFad Proxy

pFad v3 Proxy

pFad v4 Proxy