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0
votes
0
replies
414
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QUAL cut-off in variants filtering
NGS
2.7 years ago by ManuelDB ▴ 110
0
votes
0
replies
386
views
What is the relationship between the per-base sequence quality of a FASTQ file and the QUAL of a VCF file
NGS
2.7 years ago by ManuelDB ▴ 110
0
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0
replies
2.7k
views
Comment: Comment: How do you know if a variant is in cis or trans when looking at it with IGV
2.7 years ago by ManuelDB ▴ 110
4
votes
4
replies
2.7k
views
How do you know if a variant is in cis or trans when looking at it with IGV
IGV
2.7 years ago by ManuelDB ▴ 110
0
votes
1
reply
999
views
Comment: Comment: Why is needed a genome reference when calling variants
2.7 years ago by ManuelDB ▴ 110
5
votes
3
replies
999
views
Why is needed a genome reference when calling variants
NGS
updated 2.7 years ago by 147k • written 2.7 years ago by ▴ 110
0
votes
1
reply
810
views
Comment: Comment: Find a position in IGV when variant is giving in the format gene_name 12345-1G>
2.8 years ago by ManuelDB ▴ 110
1
vote
3
replies
810
views
Find a position in IGV when variant is giving in the format gene_name 12345-1G>A
igv
updated 2.8 years ago by ▴ 190 • written 2.8 years ago by ▴ 110
0
votes
0
replies
634
views
Plotting the density of CNV with karyoploteR
karyoploteR
2.8 years ago by ManuelDB ▴ 110
0
votes
1
reply
1.4k
views
Comment: Comment: How to extract gene name and transcript name from the INFO column of a VCF file
2.8 years ago by ManuelDB ▴ 110
1
vote
3
replies
1.4k
views
How to extract gene name and transcript name from the INFO column of a VCF file
pandas VCF
updated 2.8 years ago by ▴ 520 • written 2.8 years ago by ▴ 110
0
votes
0
replies
1.7k
views
Comment: Comment: Strange error when using gzip.open with a VCF file
2.8 years ago by ManuelDB ▴ 110
0
votes
3
replies
763
views
Why in Biomart Exon region start is before than Gene start?
Biomart
updated 2.8 years ago by 102k • written 2.8 years ago by ▴ 110
0
votes
0
replies
628
views
Comment: Comment: iterating over LiftOver in big dataset
2.8 years ago by ManuelDB ▴ 110
0
votes
2
replies
628
views
iterating over LiftOver in big dataset
pyliftover LiftOver
2.8 years ago by ManuelDB ▴ 110
0
votes
0
replies
829
views
Comment: Comment: Unrecognised chromosome value (e.g. chr16_KI270853v1_alt) in the UCSC Genome Bro
2.8 years ago by ManuelDB ▴ 110
4
votes
3
replies
1.0k
views
What the last output of liftover means?
liftover Python
updated 2.8 years ago by ★ 2.1k • written 2.8 years ago by ▴ 110
1
vote
1
reply
576
views
How to see how long a command takes in Galaxy?
Galaxy
updated 2.8 years ago by ▴ 180 • written 2.8 years ago by ▴ 110
2
votes
2
replies
1.2k
views
Is transcript linked with the reference genome
transcripts NGS bed_file
updated 2.8 years ago by ▴ 180 • written 2.8 years ago by ▴ 110
1
vote
2
replies
829
views
Unrecognised chromosome value (e.g. chr16_KI270853v1_alt) in the UCSC Genome Browser
bed_file UCSC_Genome_Browser
2.8 years ago by ManuelDB ▴ 110
0
votes
1
reply
645
views
I do not get what I expected from Biomart
Biomart Ensemble Bed
updated 2.8 years ago by 147k • written 2.8 years ago by ▴ 110
1
vote
3
replies
744
views
How to evaluate which genome reference and alignment tool is "the best" for my pipeline?
pipeline NGS
updated 2.8 years ago by 102k • written 2.8 years ago by ▴ 110
0
votes
0
replies
744
views
Comment: Comment: How to evaluate which genome reference and alignment tool is "the best" for my p
2.8 years ago by ManuelDB ▴ 110
1
vote
1
reply
598
views
Why in my Per Tile Sequence Quality plot, the Y-axis starts with 1101?
fastqc
updated 2.8 years ago by 147k • written 2.8 years ago by ▴ 110
0
votes
0
replies
329
views
I dont really undertand how interval-padding from GenotypeGVCF works
GenotypeGVCF
2.8 years ago by ManuelDB ▴ 110
0
votes
1
reply
691
views
Difficulty finding useful info from Genome in a Bottle
GIAB
updated 2.8 years ago by 147k • written 2.8 years ago by ▴ 110
2
votes
1
reply
722
views
GATK QC where I start?
NGS QC GATK
updated 2.8 years ago by ▴ 520 • written 2.8 years ago by ▴ 110
0
votes
0
replies
1.3k
views
Comment: Comment: I can't understand my sam files
2.8 years ago by ManuelDB ▴ 110
2
votes
3
replies
1.3k
views
I can't understand my sam files
NGS SAM
updated 2.8 years ago by 14k • written 2.8 years ago by ▴ 110
0
votes
1
reply
778
views
While using CombineVariants with vcf files, these are recognise as gvcf
GATK3
updated 2.9 years ago by 147k • written 2.9 years ago by ▴ 110
1
vote
4
replies
958
views
Parsing arguments in BWA tool
bwa
updated 2.9 years ago by 85k • written 2.9 years ago by ▴ 110
1
vote
1
reply
793
views
Mapping genes from VCF by exclusively using python
vcf
updated 23 months ago by 44k • written 2.9 years ago by ▴ 110
0
votes
2
replies
1.2k
views
Comment: Comment: Why are there many start_codon for the same gene in hg38.refGene.gtf
2.9 years ago by ManuelDB ▴ 110
4
votes
4
replies
1.2k
views
Why are there many start_codon for the same gene in hg38.refGene.gtf
gtf
updated 2.9 years ago by 164k • written 2.9 years ago by ▴ 110
0
votes
0
replies
1.4k
views
Comment: Comment: Annotating genes from the coordinates of variants of a VCF file
2.9 years ago by ManuelDB ▴ 110
1
vote
2
replies
1.4k
views
Annotating genes from the coordinates of variants of a VCF file
gffutils
2.9 years ago by ManuelDB ▴ 110
0
votes
0
replies
806
views
Understating the metrics histogram generated by Markduplicates (Picard)
NGS Picard
2.9 years ago by ManuelDB ▴ 110
0
votes
0
replies
4.7k
views
Comment: Comment: Why GATK4 doesn't carry out local realignment around indels ?
2.9 years ago by ManuelDB ▴ 110
7
votes
8
replies
4.7k
views
Why GATK4 doesn't carry out local realignment around indels ?
GATK
2.9 years ago by ManuelDB ▴ 110
0
votes
0
replies
451
views
MLPA analysis with Genemaker is a pain
Genemaker
3.0 years ago by ManuelDB ▴ 110
0
votes
1
reply
795
views
Malformed walker argument using MarkDuplicatesSpark
NGS
updated 3.0 years ago by 164k • written 3.0 years ago by ▴ 110
2
votes
1
reply
734
views
In the NGS pipeline, why read are sorted before marking duplicates?
NGS
updated 3.0 years ago by 8.9k • written 3.0 years ago by ▴ 110
3
votes
1
reply
599
views
Developing my own NGS pipeline
NGS
updated 3.0 years ago by 147k • written 3.0 years ago by ▴ 110
0
votes
0
replies
448
views
Calculating sensitivity and specificity between different NGS pipelines
NGS
3.1 years ago by ManuelDB ▴ 110
2
votes
1
reply
4.1k
views
Illumina Read Stitching
NGS
updated 3.1 years ago by 147k • written 3.1 years ago by ▴ 110
0
votes
0
replies
935
views
Comment: Comment: Looking for volunteer positions
3.1 years ago by ManuelDB ▴ 110
3
votes
2
replies
935
views
Looking for volunteer positions
python
3.1 years ago by ManuelDB ▴ 110
0
votes
0
replies
961
views
Comment: Comment: Where can I find VCF files of the same source
3.3 years ago by ManuelDB ▴ 110
0
votes
2
replies
961
views
Where can I find VCF files of the same source
same belonging to source VCF
3.3 years ago by ManuelDB ▴ 110
149 results • Page 3 of 3
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