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39
votes
28
replies
11k
views
10 follow
How Much Does It Cost To Align A Flowcell In The Cloud?
cloud
12 weeks ago by Jeremy Leipzig 22k
1
vote
5
replies
406
views
How quickly can an SRA submission proceed directly from S3
SRA
3 months ago by Jeremy Leipzig 22k
4
votes
5
replies
1.0k
views
VEP run with --af_gnomadg refuses to provide allele frequencies for extremely rare variants
vep gnomad
updated 8 months ago by ▴ 60 • written 8 months ago by 22k
8
votes
7
replies
1.1k
views
Why does Ensembl VEP provide HGVSg for some variants and not others?
vcf VEP
10 months ago by Jeremy Leipzig 22k
0
votes
0
replies
370
views
How do I annotate with the Clingen Canonical Allele Identifiers?
allele vcf clingen
11 months ago by Jeremy Leipzig 22k
0
votes
0
replies
386
views
Which UCSC annotation tracks would be most useful in modeling the effect of eQTLs on expression data?
eQTL
12 months ago by Jeremy Leipzig 22k
1
vote
1
reply
465
views
Are there any papers that have both anatomical imaging data and variants?
vcf imaging
updated 13 months ago by 3.9k • written 13 months ago by 22k
14
votes
11
replies
24k
views
9 follow
Where Can I Get The Asperasoft Command Line Client Ascp
sra aspera
updated 15 months ago by 141k • written 11.6 years ago by 22k
9
votes
7
replies
5.0k
views
6 follow
Why Isn'T Na12878 In All.2Of4Intersection.20100804.Genotypes.Vcf.Gz
1000genomes
updated 19 months ago by 43k • written 10.5 years ago by 22k
3
votes
2
replies
608
views
What are the latest and greatest variant browsers?
variants browser vcf
updated 20 months ago by 141k • written 20 months ago by 22k
2
votes
2
replies
638
views
What are the biggest sets of individual-level sequence-based variant data?
wxs wgs
22 months ago by Jeremy Leipzig 22k
1
vote
1
reply
620
views
What tools are best for conjoined gene/readthough detection and how do they differ from fusion gene detection?
conjoined fusion gene
updated 2.8 years ago by 47k • written 2.8 years ago by 22k
43
votes
19
replies
12k
views
9 follow
Basic Bam File Annotation
bedtools bam htseq annotation rseqc
2.9 years ago by Jeremy Leipzig 22k
7
votes
5
replies
14k
views
What Is The Expected Size Of A Whole Genome Vcf And Bcf?
vcf
updated 3.4 years ago by 43k • written 11.8 years ago by 22k
7
votes
6
replies
2.0k
views
Chromosome Purification Before De Novo Assembly
updated 3.5 years ago by ▴ 20 • written 12.0 years ago by 22k
5
votes
2
replies
2.3k
views
What Ever Happened To Alignment Servers?
alignment blat
updated 3.5 years ago by 20 • written 10.7 years ago by 22k
2
votes
2
replies
5.5k
views
How Do I Use Variantfiltration To Filter By Vqslod And/Or The Tranches?
gatk vcf
updated 3.6 years ago by ▴ 50 • written 11.8 years ago by 22k
15
votes
11
replies
5.4k
views
Programming Challenge: Divide The Human Genome Among X Cores, Taking Into Account Gaps
programming
updated 4.6 years ago by 20 • written 10.8 years ago by 22k
12
votes
6
replies
3.6k
views
Pegasus Vs Taverna
workflow
updated 4.7 years ago by 20 • written 12.1 years ago by 22k
4
votes
3
replies
864
views
How do I get the reference allele from this Ensembl variation endpoint?
ensembl
4.9 years ago by Jeremy Leipzig 22k
10
votes
7
replies
1.8k
views
Why are the sum of all exons so much longer than CDS?
exons cds
updated 5.2 years ago by 14k • written 5.2 years ago by 22k
51
votes
15
replies
5.6k
views
8 follow
What Are Some Sanity Checks That Should Be Performed On Ngs Data?
next-gen sequencing pipeline quality
updated 5.2 years ago by 20 • written 13.4 years ago by 22k
0
votes
0
replies
776
views
mixed models with phylogenetic trees
mixed-models
5.6 years ago by Jeremy Leipzig 22k
1
vote
9
replies
1.1k
views
how to map a probeset to a reference?
SNP microarray probeset
5.6 years ago by Jeremy Leipzig 22k
5
votes
1
reply
1.5k
views
What Is This Salk Tiling Array Data Format?
atta
updated 5.6 years ago by 43k • written 13.9 years ago by 22k
11
votes
7
replies
3.7k
views
How Do I Set Up Gbrowse For Comparative Coverage?
gbrowse
updated 5.6 years ago by 43k • written 13.9 years ago by 22k
6
votes
4
replies
8.3k
views
How Do I Create A Seqrecord In Biopython?
biopython fastq
updated 5.6 years ago by 43k • written 14.0 years ago by 22k
37
votes
46
replies
6.9k
views
12 follow
Quick Programming Challenge: How Do I Calculate Reference Coverage From A Table Of Alignment Starts And Ends?
code alignment programming
updated 5.6 years ago by 43k • written 14.0 years ago by 22k
7
votes
5
replies
4.2k
views
Does Biopython Parse Blast -M8 Or -M9 (Aka Blasttable)?
biopython python
updated 5 months ago by 43k • written 14.0 years ago by 22k
5
votes
1
reply
3.3k
views
How Do I Get Some Basic Counts From Readaligned?
bioconductor r bowtie short aligner
updated 5.6 years ago by 43k • written 14.0 years ago by 22k
6
votes
6
replies
2.6k
views
How Can A Base-Called Position Be "Unknown" But Have A Non-Minimal Score?
fastq
updated 6 months ago by 43k • written 14.1 years ago by 22k
33
votes
9
replies
10k
views
10 follow
Which C++ Libraries Are Best For Dealing With Fastq Files?
next-gen-sequencing fastq c
updated 5 months ago by 43k • written 14.1 years ago by 22k
6
votes
2
replies
1.9k
views
NCBI esearch for cited papers with public SRA data
esearch entrez ncbi sra
5.8 years ago by Jeremy Leipzig 22k
14
votes
6
replies
5.3k
views
How Do I Tell Topgo How Scores Work?
updated 6.5 years ago by ★ 3.0k • written 10.2 years ago by 22k
1
vote
2
replies
1.6k
views
Which sequencing services provide the highest quality metadata?
metadata sequencing
updated 6.5 years ago by 87k • written 7.0 years ago by 22k
2
votes
2
replies
2.3k
views
ELI5: Why is population structure considered a fixed effect in mixed linear models?
gwas mlm
updated 6.9 years ago by ★ 1.2k • written 7.6 years ago by 22k
8
votes
2
replies
2.0k
views
How Important Is It To Gather New Controls For Whole Genome And Exome Variant Studies?
exome
updated 7.6 years ago by 20 • written 10.8 years ago by 22k
3
votes
0
replies
1.7k
views
What are the best examples of sample naming conventions?
metadata
7.9 years ago by Jeremy Leipzig 22k
5
votes
2
replies
2.7k
views
Did dbSNP not get the memo about hg38 chromosome names?
hg38 GRCh38
updated 8.4 years ago by 7.3k • written 8.4 years ago by 22k
1
vote
2
replies
1.6k
views
Is it worth realigning 1000 Genomes?
1000genomes
updated 20 months ago by 43k • written 8.6 years ago by 22k
5
votes
6
replies
2.6k
views
Programming Challenge: Quickest Way To Determine The "Superpopulation" From A Vcf?
vcf
updated 8.6 years ago by 20 • written 10.4 years ago by 22k
0
votes
1
reply
1.4k
views
File migrations, archivals, and age-outs in tiered storage
storage
updated 8.9 years ago by 35k • written 8.9 years ago by 22k
8
votes
3
replies
4.1k
views
What Coverage Is Required For Chip-Seq Experiments?
chip-seq
updated 9.1 years ago by 20 • written 13.5 years ago by 22k
136
votes
29
replies
7.6k
views
16 follow
How Do We Discourage Ad-Hoc Bioinformatic Analyses?
software
updated 2.0 years ago by 43k • written 13.3 years ago by 22k
6
votes
1
reply
2.4k
views
What are the most common human indels?
indel dbsnp
updated 9.3 years ago by 161k • written 9.3 years ago by 22k
10
votes
3
replies
3.2k
views
Is There A Convention For Representing Indels In Diploid Genome Sequences?
indel sequence
updated 10.2 years ago by 20 • written 12.3 years ago by 22k
5
votes
5
replies
3.7k
views
Which Databases Carry Named Gene Variants Like Apoe4
variant haplotype
updated 10.5 years ago by 20 • written 11.7 years ago by 22k
12
votes
20
replies
6.4k
views
What Are The Advantages Of Calling Variants On Individuals, On Trios, And On Cohorts?
vcf variant-calling
updated 10.6 years ago by 19k • written 11.7 years ago by 22k
9
votes
5
replies
3.6k
views
Why Does Vcf Aggregate Indels Like This?
vcf
updated 10.7 years ago by 20 • written 12.4 years ago by 22k
0
votes
3
replies
2.9k
views
What Does This Lumpy Output Mean?
10.8 years ago by Jeremy Leipzig 22k
72 results • Page 1 of 2
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