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0
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176
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Advice on telling if two SNPs are on the same haplotype
ldpair halplotype co-occurance gnomad snp
8 weeks ago by amy__ ▴ 160
0
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13
replies
923
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Help with the new nomenclature of multi-nucleotide variants
bam igv multinucleotide
9 weeks ago by amy__ ▴ 160
2
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4
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621
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If the mane transcript isn't available should you use the canonical transcript?
ensembl mane gnomad canonical
10 weeks ago by amy__ ▴ 160
0
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1
reply
301
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LOFTEE flag on GnomAD - END_TRUNC
loftee gnomad
updated 3 months ago by 161k • written 3 months ago by ▴ 160
0
votes
1
reply
228
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Extracting LOF variants and incidence from GnomAD for a list of genes
Gnomad LOF genes
updated 4 months ago by 4.2k • written 4 months ago by ▴ 160
2
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6
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859
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Genotypes in vcf files
genotypes vcf
updated 5 months ago by 22k • written 5 months ago by ▴ 160
0
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0
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318
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Filtering vcf by strand bias / annotating strand bias on
Vcf
updated 6 months ago by 43k • written 6 months ago by ▴ 160
0
votes
1
reply
390
views
How to find the most representative protein data base ID for your protein?
modelling protein database
updated 7 months ago by 142k • written 7 months ago by ▴ 160
1
vote
3
replies
526
views
Classification for low quality variant on IGV
bam igv
updated 9 months ago by ★ 2.0k • written 9 months ago by ▴ 160
6
votes
2
replies
889
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IGV - is it possible to tell what allele a read is from?
WES reads IGV
9 months ago by amy__ ▴ 160
1
vote
2
replies
512
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Low coverage in specific exons of genes - sequencing errors?
coverage
10 months ago by amy__ ▴ 160
0
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4
replies
872
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Difference between USCS exon coordinates and ensembl
exons Ensembl
11 months ago by amy__ ▴ 160
0
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0
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352
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GC content of WES cohort
WES FASTQC GC-content
updated 12 months ago by 43k • written 12 months ago by ▴ 160
1
vote
1
reply
485
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Variant depth cut off - justification
VCF depth variant
updated 13 months ago by ★ 2.0k • written 13 months ago by ▴ 160
4
votes
3
replies
695
views
Is it possible to do bedtools multicov across the entire genome?
bedtools
updated 11 months ago by 43k • written 15 months ago by ▴ 160
0
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0
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326
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Haloplex HS - should you remove duplicates?
deduplicate Haloplex duplicates
15 months ago by amy__ ▴ 160
3
votes
3
replies
756
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liftover output column help
liftover
updated 16 months ago by 161k • written 16 months ago by ▴ 160
0
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0
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294
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GQ score - what do the numbers mean? How can this be interpreted?
vcf GQ
18 months ago by amy__ ▴ 160
0
votes
3
replies
584
views
Add absolute colours to heat map depending on range
heatmap pheatmap
updated 19 months ago by 4.6k • written 19 months ago by ▴ 160
3
votes
3
replies
1.7k
views
bcftools split-vep -- how to split the INFO column up and also assign the ensembl vep headers
bcftools ensembl-vep vep
updated 11 months ago by 43k • written 20 months ago by ▴ 160
0
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6
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1.2k
views
Missing reads in fastp
fastp filtering trimming
updated 21 months ago by 100k • written 21 months ago by ▴ 160
14
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12
replies
4.4k
views
6 follow
Which hg38 file?
reference hg38 NCBI
updated 9 months ago by 82k • written 21 months ago by ▴ 160
0
votes
15
replies
2.2k
views
Chromosome accession numbers correspond to which chromosome?
bam chromosome bed
18 months ago by amy__ ▴ 160
1
vote
2
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2.6k
views
fastp ERROR: igzip: encountered while decompressing file:
fastp igzip trimming
updated 22 months ago by 142k • written 22 months ago by ▴ 160
3
votes
5
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1.8k
views
qualimap - bed file error - BED format error, there should be at least 6 fields.
qualimap
updated 23 months ago by 35k • written 23 months ago by ▴ 160
2
votes
3
replies
1.4k
views
bedcov output meaning
coverage read bedcov
updated 23 months ago by 161k • written 23 months ago by ▴ 160
7
votes
9
replies
1.5k
views
Do you need to define adapter sequences for trimming and QC tools?
adapters fastp illumina trimming
24 months ago by amy__ ▴ 160
2
votes
2
replies
561
views
Single-read mapped reads? Fastp paper unclear
fastp single-read reads
2.0 years ago by amy__ ▴ 160
9
votes
7
replies
1.7k
views
How to work out coverage (100X) of WES using exome bed file?
bed WES coverage
updated 14 months ago by 43k • written 2.1 years ago by ▴ 160
4
votes
3
replies
3.0k
views
Errors when using samtools faidx and bgzip for indexing human reference genome
bgzip samtools
updated 11 months ago by 43k • written 2.2 years ago by ▴ 160
1
vote
1
reply
582
views
Copy of FASTQC documentation pdf
fastqc documentation
updated 2.2 years ago by 100k • written 2.2 years ago by ▴ 160
0
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7
replies
1.3k
views
How to make a diagram of a gene?
gene diagram
updated 2.2 years ago by ★ 2.5k • written 2.3 years ago by ▴ 160
0
votes
2
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638
views
bwa index - failed to find .pac
index .pac hpc bwa
2.3 years ago by amy__ ▴ 160
1
vote
1
reply
772
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Input and output of picard markduplicate for deepvariant
markduplicates picard bam sam deepvariant
updated 2.3 years ago by ★ 1.8k • written 2.3 years ago by ▴ 160
0
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2
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674
views
Should your variant calling pipeline change depending on whether using WES or WGS?
calling WGS WES Variant
2.5 years ago by amy__ ▴ 160
0
votes
3
replies
934
views
strange looking bcftools norm file
bcftools samtools variant
updated 11 months ago by 43k • written 3.2 years ago by ▴ 160
0
votes
7
replies
1.1k
views
subread keeps makes a weird .sam file, have i done something wrong?
subread rsubread alignment DNA reference
3.3 years ago by amy__ ▴ 160
37 results • Page 1 of 1
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