Tag: Correct

Shiftcor 1.3 – Compares, Identifies, Corrects and Re-referencs Protein Chemical Shifts

Shiftcor 1.3

:: DESCRIPTION

Shiftcor compares, identifies, corrects and re-referencs 1H, 13C and 15N backbone chemical shifts of peptides and proteins by comparing the observed chemical shifts with the predicted chemical shifts derived from the 3D structure (PDB corrdinates) of the protein(s)of interest.

::DEVELOPER

the Wishart Research Group, University of Alberta

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

  NO

:: MORE INFORMATION

Citation

Haiyan Zhang, Stephen Neal and David Wishart (2003)
“RefDB: A database of uniformly referenced protein chemical shifts”
Journal of Biomolecular NMR, 25: 173-195

LongStitch v1.0.1 – Correct and Scaffold Assemblies using long Reads

LongStitch v1.0.1

:: DESCRIPTION

LongStitch is a scalable pipeline that corrects and scaffolds draft genome assemblies exclusively using long reads.

::DEVELOPER

BC Cancer Canada’s Michael Smith Genome Sciences Centre

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

LongStitch

:: MORE INFORMATION

Citation

Coombe L, Li JX, Lo T, Wong J, Nikolic V, Warren RL, Birol I.
LongStitch: high-quality genome assembly correction and scaffolding using long reads.
BMC Bioinformatics. 2021 Oct 30;22(1):534. doi: 10.1186/s12859-021-04451-7. PMID: 34717540.

Hybrid SHREC – Error Correction Algorithm for Correcting Reads

Hybrid SHREC

:: DESCRIPTION

Hybrid SHREC is an error correction algorithm for correcting reads from various DNA sequencing platforms. We provide two versions of the algorithm: one that performs the error correction in base space and is limited to normal base space reads and another that performs error correction in the color space of the SOLiD sequencing technology by Applied Biosystems.

::DEVELOPER

Leena Salmela

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

  Hybrid SHREC

:: MORE INFORMATION

Citation:

Bioinformatics. 2010 May 15;26(10):1284-90. Epub 2010 Apr 8.
Correction of sequencing errors in a mixed set of reads.
Salmela L.