Example sequence alignments and profile HMMs were sampled from Seed alignments and profiles in Pfam 24 [11] (link). Example target sequences were sampled from UniProt version 2011_03 [43] (link). One experiment that characterized roundoff error used older versions, Pfam 22 and UniProt 7.0.
Comparative Sequence Analysis Software Benchmarking
Example sequence alignments and profile HMMs were sampled from Seed alignments and profiles in Pfam 24 [11] (link). Example target sequences were sampled from UniProt version 2011_03 [43] (link). One experiment that characterized roundoff error used older versions, Pfam 22 and UniProt 7.0.
Corresponding Organization : Janelia Research Campus
Protocol cited in 1 960 other protocols
Variable analysis
- Software versions used: SAM 3.5, NCBI BLAST+ 2.2.24+, FASTA 36.3.3, WU-BLAST 2.0MP-WashU, HMMER 2.3.2, and HMMER 3.0
- Example sequence alignments and profile HMMs sampled from Seed alignments and profiles in Pfam 24
- Example target sequences sampled from UniProt version 2011_03
- Older versions of Pfam 22 and UniProt 7.0 used in one experiment
- Roundoff error characterized in one experiment
- Not explicitly mentioned
- Not specified
- Not specified
Annotations
Based on most similar protocols
As authors may omit details in methods from publication, our AI will look for missing critical information across the 5 most similar protocols.
About PubCompare
Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.
We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.
However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.
Ready to get started?
Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required
Revolutionizing how scientists
search and build protocols!