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How to keep the input bed coordinates of a bed?
bed liftover written 12 days ago by yunzhe.jiang97 • 0
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4
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925
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6 follow
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Create Chain File for Converting Genome Coordinates
genome assembly coordinates liftover alignment written 15 months ago by Gabriel • 40 • updated 19 days ago by Charles Warden ♦ 7.9k
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Is it pretty common to have "reverse complemented alleles" when lifting over a vcf from hg19 to hg38?
gatk picard liftover written 23 days ago by curious • 450
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Debug LiftOver Failures
ncbi remapping grch37 grch38 liftover written 4 weeks ago by afollette • 0
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How Do I Convert Hg19 Gvf To Hg18 Gvf Using Ucsc Liftover Tool
liftover hg19 written 8.4 years ago by gupta.ne • 0 • updated 4 weeks ago by Biostar ♦♦ 20
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152
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LiftOver CNA data from Hg19 to Hg38
cna ncbiremapper hg38 liftover hg19 written 9 weeks ago by afollette • 0 • updated 9 weeks ago by genomax ♦ 91k
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166
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Convert list of ensembl Human genes -GRCh38.p13- from biomart to hg38 coordinates
genome ensembl hg38 liftover assembly written 10 weeks ago by ekwame • 60
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223
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Losing 15% of SNPs during Liftover with" PicardLiftover VCF" or "CrossMap"
gwas crossmap picard liftover written 11 weeks ago by arctic • 20
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185
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Liftover nonmodel VCF
chain file satsuma liftover ucsc written 11 weeks ago by raf.marcondes • 30
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Lifting over results in coordinates that do not agree with what the rsid suggests the coordinates should be?
hla liftover written 12 weeks ago by curious • 450
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Lifting over and harmonizing a plink file so major allele is forward on hg19?
strand plink liftover written 3 months ago by curious • 450
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3
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160
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3
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How to convert genomic region of following type to vcf file?
vcf conversion liftover written 4 months ago by svp • 240 • updated 4 months ago by Pierre Lindenbaum ♦ 131k
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5 follow
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Converting SNPs from hg19 to hg38
hg38 dbsnp summary statistics liftover hg19 written 4 months ago by ika • 40 • updated 4 months ago by brunobsouzaa • 360
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177
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LiftoverVcf no output
genome assembly picard liftover sequencing written 4 months ago by brismiller • 40
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186
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How to liftover SNPs between different assemblies from different databases?
ncbi ensembl snp liftover assembly written 8 months ago by rimgubaev • 190 • updated 7 months ago by Biostar ♦♦ 20
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1
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809
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1
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rs number conversion when performing liftover from hg18tohg19
snp liftover written 2.4 years ago by giulia.pagani • 10 • updated 7 months ago by andy.wang • 40
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177
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None of the variants updated from hg18 to 19
liftover imputation plink genomebuild written 8 months ago by NS • 0
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NCBI vs Liftover vs ENSEMBL for Assembly Conversion for SNP data (GRCh37 to GRCh38)
ncbi assembly snp liftover ensembl written 12 months ago by sarvism • 0 • updated 9 months ago by Biostar ♦♦ 20
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572
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LiftOver from b37
liftover written 11 months ago by vctrm67 • 20 • updated 11 months ago by Pierre Lindenbaum ♦ 131k
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Sequence mapping with reciprocal-best but not liftover chains?
alignment bnmapper liftover ucsc written 4.8 years ago by agd27 • 100 • updated 13 months ago by ATpoint ♦ 40k
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1
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1
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CrossMap VCF liftover (GRCh37 > GRCh38): END info field for indel calls not lifted over
crossmap liftover written 14 months ago by mrodrigues.fernanda • 50 • updated 14 months ago by Brice Sarver • 3.5k
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386
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1
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Ideas on how to evaluate genomic coordinates remapping tools?
assembly remap remapping liftover variants written 15 months ago by juliette • 20 • updated 15 months ago by WouterDeCoster ♦ 44k
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410
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One tool for get genome co-ordinates from rsIDs GWAS sumstats files, then liftOver from hg18 to hg19?
liftover gwas sumstats snp linux written 16 months ago by camerond • 150
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How to creat *over.chain.gz file
liftover chain file written 17 months ago by afli • 190 • updated 16 months ago by Biostar ♦♦ 20
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1
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Convert physical positions from Hg18 to Hg19
liftover written 17 months ago by Mr Locuace • 100 • updated 17 months ago by ATpoint ♦ 40k
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Lifting over macaque microarray data from one species reference (hg19) to another (macaque)
vcf iscan picard microarray liftover written 18 months ago by olikidrod • 0
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CrossMap liftover: REF alleles in VCF files overwritten by reference genome file.
vcf crossmap liftover affymetrix genotyping written 23 months ago by freezingsleet97 • 10 • updated 22 months ago by Biostar ♦♦ 20
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bwtool stalled liftover
bigwig liftover bwtool written 2.2 years ago by rbronste • 360
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Taking Imputation Results from Build37 to Build38 Using a NEW Chain File
imputation liftover written 2.2 years ago by bg1116 • 0
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How to create a BED file for liftOver form Plink .bed .bim and .fam filed
bed plink liftover written 2.3 years ago by OAJn8634 • 60
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