snp.gs.washington.edu

SeattleSeq Variation Annotation

Download Example Input Files. SeattleSeq Ann. 138 (hg19). Input Variation List File for Annotation. Use reference NCBI 38/hg38. Annotations for the NCBI gene model will be returned. SNVs only unless otherwise indicated). VCF SNVs and Indels (SNVs and/or indels). Specify output file format:. SeattleSeq (tabular) file format. Specify column numbers (first is 1):. Reference allele (0 if not present). Second allele (can be same as first allele column). One genotype per line. GATK bed (indels only).

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SeattleSeq Variation Annotation | snp.gs.washington.edu Reviews

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Download Example Input Files. SeattleSeq Ann. 138 (hg19). Input Variation List File for Annotation. Use reference NCBI 38/hg38. Annotations for the NCBI gene model will be returned. SNVs only unless otherwise indicated). VCF SNVs and Indels (SNVs and/or indels). Specify output file format:. SeattleSeq (tabular) file format. Specify column numbers (first is 1):. Reference allele (0 if not present). Second allele (can be same as first allele column). One genotype per line. GATK bed (indels only).

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1 seattleseq annotation 141

2 sponsored by seattlesnps

3 and seattleseq

4 about seattleseq annotation

5 how to use

6 build notes

7 enter e mail address

8 input file format

9 vcf file format

10 specify attribute tags

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SeattleSeq Variation Annotation | snp.gs.washington.edu Reviews

https://snp.gs.washington.edu

Download Example Input Files. SeattleSeq Ann. 138 (hg19). Input Variation List File for Annotation. Use reference NCBI 38/hg38. Annotations for the NCBI gene model will be returned. SNVs only unless otherwise indicated). VCF SNVs and Indels (SNVs and/or indels). Specify output file format:. SeattleSeq (tabular) file format. Specify column numbers (first is 1):. Reference allele (0 if not present). Second allele (can be same as first allele column). One genotype per line. GATK bed (indels only).

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snp.gs.washington.edu

1

SeattleSeq Variation Annotation

http://snp.gs.washington.edu/SeattleSeqAnnotation138

Download Example Input Files. SeattleSeq Annot. latest. Input Variation List File for Annotation. Use reference NCBI 37/hg19. Annotations for the NCBI gene model will be returned. SNVs only unless otherwise indicated). Specify output file format:. SeattleSeq Annotation file format. Specify column numbers (first is 1):. Reference allele (0 if not present). Second allele (can be same as first allele column). One genotype per line. Output is one genotype per line format. GATK bed (indels only).

2

SeattleSeq Variation Annotation

http://snp.gs.washington.edu/SeattleSeqAnnotation141/index.jsp

Download Example Input Files. SeattleSeq Annot. latest. SeattleSeq Ann. 138 (hg19). Input Variation List File for Annotation. Use reference NCBI 38/hg38. Annotations for the NCBI gene model will be returned. SNVs only unless otherwise indicated). VCF SNVs and Indels (SNVs and/or indels). Specify output file format:. SeattleSeq (tabular) file format. Specify column numbers (first is 1):. Reference allele (0 if not present). Second allele (can be same as first allele column). One genotype per line.

3

SeattleSeq Annotation Server Build Notes

http://snp.gs.washington.edu/SeattleSeqAnnotation141/HelpBuildNotes.jsp

Download Example Input Files. SeattleSeq Annot. latest. SeattleSeq Ann. 138 (hg19). SeattleSeq Annotation Build Notes. The current SeattleSeq Annotation version is 10.05, Oct. 28, 2015. Newer versions of GATK may document spanning deletions when there are multiple individuals in the VCF file. This puts strings like "*" or ". Build notes for 10.04, Oct. 25, 2015. The current server load is available at http:/ snp.gs.washington.edu/SeattleSeqAnnotation141/getLoad.jsp. Build notes for 10.03, May 3, 2015.

4

How to Use SeattleSeq Annotation

http://snp.gs.washington.edu/SeattleSeqAnnotation141/HelpHowToUse.jsp

Download Example Input Files. SeattleSeq Annot. latest. SeattleSeq Ann. 138 (hg19). How to Use SeattleSeq Annotation. Input Variation List File for Annotation. Only chromosomes 1-22 and X and Y will be annotated. The variations should be grouped by chromosome in the file, for maximum speed. The maximum number of lines in the file is 1 million, and the maximum file size is 1 GB. Long indels ( 1000 bp) and structural variants (including the VCF. 1 Both SNVs and indels can be submitted in VCF format. Th...

5

SeattleSeq Variation Annotation

http://snp.gs.washington.edu/SeattleSeqAnnotation137

Download Example Input Files. SeattleSeq Ann. latest hg19. SeattleSeq Ann. latest hg38. Input Variation List File for Annotation (NCBI 37 / hg19). SNVs only unless otherwise indicated). Specify output file format:. SeattleSeq Annotation file format. Specify column numbers (first is 1):. Reference allele (0 if not present). Second allele (can be same as first allele column). One genotype per line. Output is one genotype per line format. GATK bed (indels only). Specify output file format:. National Heart, ...

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http://chum.gs.washington.edu/datatools.html

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SeattleSeq Variation Annotation

Download Example Input Files. SeattleSeq Ann. 138 (hg19). Input Variation List File for Annotation. Use reference NCBI 38/hg38. Annotations for the NCBI gene model will be returned. SNVs only unless otherwise indicated). VCF SNVs and Indels (SNVs and/or indels). Specify output file format:. SeattleSeq (tabular) file format. Specify column numbers (first is 1):. Reference allele (0 if not present). Second allele (can be same as first allele column). One genotype per line. GATK bed (indels only).

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