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7
votes
4
answers
4.0k
views
4
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Modifying fasta file based on vcf information
vcf fasta reference genome written 5.3 years ago by Jautis • 290 • updated 7 days ago by skanterakis • 110
0
votes
1
answer
153
views
1
answer
About hg38 reference genome indexing
hg38 reference genome written 10 weeks ago by kwanghoon • 10
0
votes
0
answers
155
views
0
answers
REFERENCE GENOME - merging files
reference genome written 3 months ago by GiuliaAC • 0
2
votes
1
answer
273
views
5 follow
1
answer
Reference mouse genome
fasta alignment reference genome written 5 months ago by atheeth14 • 0 • updated 5 months ago by genomax ♦ 89k
0
votes
0
answers
252
views
0
answers
Rearrangement of draft genomes in bacterial strains using reference genome
draft genomes bacterial strains reference genome written 12 months ago by amresharma1 • 0 • updated 10 months ago by Biostar ♦♦ 20
0
votes
0
answers
440
views
0
answers
BwaMemIndexImageCreator fails to generate reference.img file
gatk reference genome index written 12 months ago by fmail1221 • 0 • updated 12 months ago by 7ehuang • 0
0
votes
2
answers
892
views
2
answers
Description of alt loci in ref genome GRCh38.d1.vd1
alternate loci tcga reference genome written 24 months ago by Maarten Slagter • 110 • updated 13 months ago by m_two • 0
5
votes
1
answer
362
views
1
answer
Is it a problem that the reference genome is not at the chromosome level?
reference genome scaffolds chromosome written 13 months ago by beausoleilmo • 330 • updated 13 months ago by Brice Sarver • 3.5k
1
vote
2
answers
568
views
2
answers
Sea of Ns in downloaded mm10 from NCBI and GRCm38.p6 primary sequence from Ensemble
reference genome rna-seq written 13 months ago by akh22 • 40
2
votes
2
answers
1.4k
views
2
answers
UK Biobank reference genome?
uk biobank reference genome written 18 months ago by Sal.Leggio63 • 0 • updated 13 months ago by Eric T. • 2.6k
0
votes
0
answers
315
views
0
answers
Ref Genome Conundrum
alignment reference genome dna written 14 months ago by aalith • 10
4
votes
3
answers
574
views
5 follow
3
answers
Forum: When will the hg19/grch37 finally become obsolete?
forum reference genome written 15 months ago by gdaly9000 • 10 • updated 15 months ago by Jeremy Leipzig ♦ 19k
0
votes
0
answers
354
views
0
answers
Mapping reads to reference genome + Denovo assembly
reads reference genome blocks denovo assembly written 16 months ago by Elizabeth • 20
1
vote
1
answer
448
views
1
answer
Which reference genome for the annotation of the 1KG variant data by snpEff?
snpeff reference genome variant annotation written 16 months ago by Nam Le Quang • 70
1
vote
0
answers
761
views
0
answers
Low Mapping percentage with Minimap2 due to contamination
minimap2 reference genome mapping nanopore written 18 months ago by rah • 20
0
votes
1
answer
859
views
1
answer
Problems with the reference genome in Stringtie
stringtie reference genome rna-seq lncrna written 19 months ago by iraia.munoa • 100 • updated 19 months ago by Devon Ryan ♦ 96k
13
votes
1
answer
770
views
5 follow
1
answer
Finding out assembly reference from bam file
snp calling bam reference genome written 20 months ago by cmcouto.silva • 30 • updated 20 months ago by biobiu • 120
0
votes
1
answer
560
views
1
answer
Comparing VCFs constructed from mapping to different reference genomes
vcf comparisons reference genome written 21 months ago by kat • 10
5
votes
1
answer
2.7k
views
1
answer
TCGA CNV/SNP6 Reference Sequence - hg19
tcga reference genome snp cnv hg19 written 6.0 years ago by dirigible2012 • 320 • updated 21 months ago by Biostar ♦♦ 20
3
votes
1
answer
1.5k
views
1
answer
reference genome hs37d5 with PhiX
ngs reference genome written 24 months ago by SOHAIL • 310 • updated 21 months ago by kelso • 20
5
votes
1
answer
763
views
1
answer
Choosing human reference genome and indexing
indexing reference genome rna-seq written 23 months ago by Batu • 170 • updated 23 months ago by Devon Ryan ♦ 96k
8
votes
0
answers
1.4k
views
7 follow
0
answers
Compatibility between my reference genome and GTF file
alignment reference genome rna-seq hisat2 written 24 months ago by Batu • 170
22
votes
2
answers
5.5k
views
13 follow
2
answers
What is the difference between GRCh37 and hs37? And hg19?
assembly hg19 hg38 reference genome hs37 written 2.2 years ago by juanfdelahoz • 50
5
votes
0
answers
1.2k
views
0
answers
Download latest reference genome assembly for exome sequencing alignment and variant calling
reference genome dna sequence alignment written 2.2 years ago by svlachavas • 680 • updated 2.2 years ago by Biostar ♦♦ 20
0
votes
0
answers
547
views
0
answers
Are there minimum requirements from a de novo genome assembly for it to be suitably used as a reference for SNP calling?
assembly reference genome snp wgs written 2.2 years ago by nancy • 80
0
votes
0
answers
441
views
0
answers
Psuedoautosomal regions in reference genome
reference genome par written 2.2 years ago by misterie • 90
0
votes
1
answer
1.1k
views
1
answer
bcftools consensus not working when using -H flag
vcf software error bcftools reference genome written 2.3 years ago by kirannbishwa01 • 1.2k • updated 2.3 years ago by finswimmer ♦ 13k
2
votes
1
answer
999
views
1
answer
Creating a Bowtie2 Index for S.Purpuratus to use in Galaxy
bowtie2 galaxy reference genome bowtie alignment written 2.4 years ago by alice_pieplow • 0 • updated 2.4 years ago by genomax ♦ 89k
0
votes
0
answers
947
views
0
answers
GRCh37 -> GRCh38 alternative loci index conversion
assembly bam reference genome written 2.5 years ago by lefthandgergo • 10
2
votes
1
answer
787
views
1
answer
Are reference sequences from GENCODE, Ensembl and RefSeq the same if they are called GRCh38.p10, it is just the annotation that varies?
grch38 reference genome annotations rna-seq written 2.6 years ago by amina.mcdiarmid • 0
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