Update Information

SEQUENCE Pilot

 

In the following are only significant changes listed by SEQUENCE Pilot version, such as changed algorithms for calculating results, changes to the operating system etc.

Please note, that not all available versions are necessarily listed here. Our current version is 5.3.1.

For help please don't hesitate to contact our support team.

VERSION
BUILD
MODULES
IMPORTANT ADAPTIONS
DESCRIPTION
VERSION
5.3.1
BUILD
-
MODULES
SEQNEXT, SEQPATIENT & SEQARRAY
IMPORTANT ADAPTIONS
Updated public SNP DBs are available.
DESCRIPTION
For installation instructions contact our support team.
VERSION
5.3.1
BUILD
-
MODULES
all
IMPORTANT ADAPTIONS
Changed versioning of software releases.
DESCRIPTION
The previously used builds are replaced by the third digit of a software version (e.g. 5.3.0 instead of 5.3.0 B501, 5.3.1 instead of 5.3.0 B502 etc.).
VERSION
5.3.0
BUILD
501
MODULES
SEQNEXT & SEQPATIENT
IMPORTANT ADAPTIONS
Analysis of mitochondrial DNA.
DESCRIPTION
If required, please contact our support team.
VERSION
5.3.0
BUILD
B501
MODULES
SEQNEXT
IMPORTANT ADAPTIONS
Speed improvement.
DESCRIPTION
Accelerated analysis and call times of orders.
VERSION
5.3.0
BUILD
501
MODULES
SEQPATIENT & SEQHLA
IMPORTANT ADAPTIONS
Database conversion.
DESCRIPTION
A conversion is required for certain databases due to field enlargements. For further information please contact our support team.
VERSION
5.3.0
BUILD
501
MODULES
SEQNEXT
IMPORTANT ADAPTIONS
Multi server functionality.
DESCRIPTION
For the parallelization of analyses using multiple servers in one installation. For further information please contact our support team.
VERSION
5.3.0
BUILD
501
MODULES
all
IMPORTANT ADAPTIONS
Report manager software updated.
DESCRIPTION
The new version 26 of List and Label was implemented.
VERSION
5.3.0
BUILD
501
MODULES
all
IMPORTANT ADAPTIONS
Switch to Visual Studio 2019.
DESCRIPTION
The corresponding libraries are automatically installed on server side. The installation on client side needs to be done manually using the corresponding installation file from SeqPilot\bin. For further information please contact our support team.
VERSION
5.2.0
BUILD
507
MODULES
SEQNEXT, SEQPATIENT & SEQARRAY
IMPORTANT ADAPTIONS
Data transfer to Alamut Visual Plus.
DESCRIPTION
With updating to the new Alamut version Alamut Visual Plus some changes had to be done on SEQUENCE Pilot side. For further information please contact our support team.
VERSION
5.2.0
BUILD
507
MODULES
SEQNEXT, SEQPATIENT & SEQARRAY
IMPORTANT ADAPTIONS
Improved data transfer from and to varSEAK.
DESCRIPTION
For further information please contact our support team.
VERSION
5.2.0
BUILD
507
MODULES
SEQNEXT, SEQPATIENT & SEQARRAY
IMPORTANT ADAPTIONS
New background process for accelerated variant frequency calculation.
DESCRIPTION
For further information please contact our support team.
VERSION
5.2.0
BUILD
501
MODULES
SEQNEXT, SEQPATIENT & SEQARRAY
IMPORTANT ADAPTIONS
Updated public SNP DBs are available.
DESCRIPTION
For installation instructions contact our support team.
VERSION
5.2.0
BUILD
501
MODULES
SEQNEXT
IMPORTANT ADAPTIONS
Analysis of viral NGS sequences such as SARS-CoV2.
DESCRIPTION
For set up contact our support team.
VERSION
5.2.0
BUILD
501
MODULES
SEQNEXT
IMPORTANT ADAPTIONS
Calculation of coverage for big insertions and deletions was improved.
DESCRIPTION
This change can influence variant calling.
VERSION
5.2.0
BUILD
501
MODULES
SEQNEXT-HLA
IMPORTANT ADAPTIONS
The mapping algorithms were improved.
DESCRIPTION
Several mapping problems concerning locus B/C and DRB1/DRBpseudogenes were fixed. This change can influence typing results.
VERSION
5.2.0
BUILD
501
MODULES
SEQNEXT-HLA
IMPORTANT ADAPTIONS
Analysis of one sample is faster.
DESCRIPTION
The background processes were parallelized.
VERSION
5.1.0
BUILD
503
MODULES
SEQNEXT
IMPORTANT ADAPTIONS
Improved alignment for paired end data.
DESCRIPTION
The quality score of the last base is checked as well. In case it is below the Thresholds defined in the Settings, it is trimmed. This change can influence variant calling.
VERSION
5.1.0
BUILD
502
MODULES
SEQNEXT-HLA
IMPORTANT ADAPTIONS
G/P nomenclature is calculated using the nomenclature files from IMGT. This works automatically with HLA DB version 3.38.0 or higher.
DESCRIPTION
With previous software versions the G/P-nomenclature was generated by SeqPilot with the default option. This might have differed from the official nomenclature (IMGT).
VERSION
5.1.0
BUILD
501
MODULES
SEQNEXT
IMPORTANT ADAPTIONS
Improved coverage calculations for deletions in amplicon based data.
DESCRIPTION
All reads are now counted that reach into or over a deletion. Reads that end before the deletion starts are not counted. The change can influence the variation calling.
VERSION
5.1.0
BUILD
501
MODULES
SEQNEXT
IMPORTANT ADAPTIONS
Improved alignment for single end data.
DESCRIPTION
In a special case, the alignment for single end data was wrong. This only occurred when the ROI was trimmed (cut) with the option cut/expand during ROI set up. The change can influence the variation calling.
VERSION
5.1.0
BUILD
501
MODULES
SEQNEXT
IMPORTANT ADAPTIONS
Improved alignment for paired end data.
DESCRIPTION
The last base of a read was trimmed, in case it was not matching to the reference. Now the pairs are checked. When the second read has a SNP at the same position it is not trimmed in the first read. The change can influence the variation calling.
VERSION
5.0.0
BUILD
501
MODULES
all
IMPORTANT ADAPTIONS
32bit operating systems are not supported any more.
DESCRIPTION
Server and PCs used for SEQUENCE Pilot should come with 64bit operation systems. If not, please contact our support team.
VERSION
5.0.0
BUILD
501
MODULES
SEQNEXT & TALKMASTER
IMPORTANT ADAPTIONS
The "Status" for runs, ROI Groups, Gene/Chr. Lists and ROIs can be exported via TALKMASTER now.
DESCRIPTION
If required, please contact our support team.
VERSION
4.4.0
BUILD
501
MODULES
SEQNEXT & SEQPATIENT
IMPORTANT ADAPTIONS
Updated public SNP DBs available, including ExAC and gnomAD.
DESCRIPTION
Version 4.0 of the public SNP DBs needs to be installed. For further instructions please contact our support team.
VERSION
4.4.0
BUILD
501
MODULES
SEQNEXT
IMPORTANT ADAPTIONS
Genome Mapping implemented.
DESCRIPTION
GenomeCompact file needs to be installed. For further instructions please contact our support team.
VERSION
4.2.0
BUILD
501
MODULES
all
IMPORTANT ADAPTIONS
Switch to 64bit database system.
DESCRIPTION
Directly after the update all databases must be checked an if necessary repaired. For further instructions please contact our support team.
VERSION
4.2.0
BUILD
501
MODULES
all
IMPORTANT ADAPTIONS
All reports are redesigned.
DESCRIPTION
The new reports are not installed with the update by default. For further instructions please contact our support team.
VERSION
4.2.0
BUILD
501
MODULES
SEQNEXT & SEQPATIENT
IMPORTANT ADAPTIONS
Transcript IDs available now in Mutation [master file].
DESCRIPTION
For all mutations present in Mutation [master file] a transcript must be set directly after the installation of the update. For further instructions please contact our support team.
VERSION
4.2.0
BUILD
501
MODULES
SEQNEXT & SEQPATIENT
IMPORTANT ADAPTIONS
Updated public SNP DBs available, including ClinVar and 1000 Genomes.
DESCRIPTION
Version 2.0 of the public SNP DBs needs to be installed. For further instructions please contact our support team.
VERSION
4.2.0
BUILD
501
MODULES
SEQNEXT-HLA & SEQHLA
IMPORTANT ADAPTIONS
No hlu-files for HLA database updates anymore.
DESCRIPTION
For updating the HLA database only one exe-file are offered now. Version 4.0 of the public SNP DBs needs to be installed. For further instructions please contact our support team.
VERSION
4.2.0
BUILD
501
MODULES
SEQNEXT-HLA & SEQHLA
IMPORTANT ADAPTIONS
Intronic sequences included in HLA database now.
DESCRIPTION
Intronic sequences can be displayed, but they are not included into the result calculation. For updating your HLA database please download the HLADB.exe file and follow the installation instructions.
VERSION
4.2.0
BUILD
501
MODULES
SEQNEXT
IMPORTANT ADAPTIONS
Homology search for reducing issues with pseudogenes.
DESCRIPTION
The genome index files need to be installed. For further instructions please contact our support team.