Compute Contig Statistics
Compute Contig Statistics provides basic statistics relating to the length of sequences within a fasta file. It takes a single file containing one or more sequences in fasta format as input and returns a text file.
- To use Compute Contig Statistics, upload your data in fasta format.
All files are located in the Community Data directory of the iPlant Discovery Environment at the following path:
Community Data > iplantcollaborative > example_data > sequence_statistics
Parameters Used in App
- Default parameters only, no further configuration needed.
Expect a txt file as output.
Count of sequences in fasta file
Total length of sequences
Sequences of the N50 length and greater together account for 50% of the total length of sequences in the file
Length of shortest sequence
Length of longest sequence
Median length of sequences
Mean length of sequences
Standard deviation of the mean
File name (e.g. SperuDNc5I100-sample.fa)
Tool Source for App
- Not applicable