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21
votes
9
replies
13k
views
8 follow
List all available databases for ANNOVAR
annovar
updated 8 months ago by • 0 • written 7.9 years ago by ★ 2.5k
1
vote
4
replies
1.4k
views
R corrplot: combining pvalues and correlations (Brainstorm Figure)
R corrplot
3.4 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
0
votes
2
replies
905
views
Determine Reading Frame from Exon Genomic Positions (rMATS)
RNA-Seq rmats genome
updated 3.5 years ago by 14k • written 3.5 years ago by ★ 2.5k
3
votes
8
replies
2.7k
views
Ensembl FTP Mirror in USA? Slow Downloads
ensembl vep
updated 15 months ago by • 0 • written 3.6 years ago by ★ 2.5k
1
vote
1
reply
2.4k
views
Rna-Seq Cancer Cell Line, Hg19 Or Cancer Cell Line Genome?
rna-seq hg19 cancer
updated 3.9 years ago by 20 • written 10.1 years ago by ★ 2.5k
0
votes
1
reply
807
views
MarkDups takes much longer than expected???
MarkDup Sambamba
updated 4.0 years ago by 20 • written 4.2 years ago by ★ 2.5k
8
votes
9
replies
3.4k
views
Alternatives to CNVnator?
CNV copy number variation
updated 4.1 years ago by • 0 • written 4.6 years ago by ★ 2.5k
0
votes
0
replies
769
views
BQSR BD/BI Tags into integer values?
BQSR GATK
updated 4.2 years ago by 20 • written 4.4 years ago by ★ 2.5k
1
vote
1
reply
2.7k
views
Mouse Strains in mm10/GRCm38 dbSNP 142?
hisat2 mm10 mouse dbsnp
updated 4.3 years ago by 13k • written 4.3 years ago by ★ 2.5k
0
votes
2
replies
1.8k
views
Missing MQ tag from bwa mem alignments
bwa mem wgs alignment
updated 4.4 years ago by 3.9k • written 4.4 years ago by ★ 2.5k
5
votes
4
replies
2.6k
views
How to treat heterozygous GATK calls on haploid chromosomes (sex chrom in males)
haploid gatk haplotype caller snps
updated 4.5 years ago by ▴ 10 • written 6.2 years ago by ★ 2.5k
0
votes
1
reply
804
views
BED to HDF5 in Python. Simple Script?
python hdf5 bed
4.6 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
8
votes
4
replies
1.3k
views
Samtools view -f "OR" operator possible?
samtools
updated 4.8 years ago by 14k • written 4.8 years ago by ★ 2.5k
3
votes
6
replies
8.4k
views
Read binary Illumina GTC files (1000 genomes)
illumina omni microarry gtc binary
updated 4.9 years ago by ▴ 10 • written 8.1 years ago by ★ 2.5k
4
votes
6
replies
5.3k
views
BWA MEM Definition of a Primary Alignment
alignment bwa mem wgs hts
updated 2.9 years ago by ★ 2.9k • written 4.9 years ago by ★ 2.5k
5
votes
4
replies
8.4k
views
ChromHMM 15 State Descriptions (Genic Enhancer)
ChromHMM ENCODE Roadmap Epigenomics
updated 4.9 years ago by ▴ 130 • written 7.6 years ago by ★ 2.5k
6
votes
6
replies
3.6k
views
6 follow
Resources to learn htslib and C/C++
cpp htslib c
updated 11 months ago by 43k • written 7.4 years ago by ★ 2.5k
1
vote
2
replies
2.1k
views
How to make an Exon Junction BED file from ENSEMBL
exon junction
updated 5.0 years ago by 20 • written 5.1 years ago by ★ 2.5k
3
votes
2
replies
3.6k
views
GiaB SV Calls for NIST:HG001/NA12878: What's the reference build?
CNV giab nist deletion
updated 5.1 years ago by ▴ 10 • written 7.1 years ago by ★ 2.5k
2
votes
1
reply
1.3k
views
Allele Age Software (Mutational Age)
allele-age mutational-age
updated 10 months ago by 43k • written 5.1 years ago by ★ 2.5k
1
vote
2
replies
2.0k
views
RNAseq Normalization for eQTL Mapping?
eqtl RNA-Seq qtl genetic mapping
5.3 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
0
votes
2
replies
7.5k
views
10X scRNA-seq: Demultiplex into Samples with I1, R1, and R2 FASTQs
10x single-cell RNA-Seq demultiplex
updated 5.3 years ago by 14k • written 5.3 years ago by ★ 2.5k
5
votes
7
replies
2.9k
views
Concat VCFs with some shared samples
vcf concat bcftools
updated 5.3 years ago by ▴ 120 • written 5.5 years ago by ★ 2.5k
4
votes
2
replies
3.0k
views
PennCNV Segmentation Fault
penncnv
updated 20 months ago by 43k • written 8.5 years ago by ★ 2.5k
3
votes
4
replies
1.1k
views
Documentation on VCI files? Or convert VCI to VCF?
VCI VCF
5.4 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
8
votes
5
replies
11k
views
cannot import pysam. Module has no attribute error
pysam python samtools api
updated 5.7 years ago by 43k • written 8.8 years ago by ★ 2.5k
0
votes
2
replies
3.5k
views
SNP + INDEL Merging Guidelines
VCF SNP INDEL Merging
5.9 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
12
votes
5
replies
5.2k
views
When should you left-align INDELs (and why?)
Left align indel VCF
5.9 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
0
votes
1
reply
1.1k
views
Recalculate QUAL for SNPs in VCF
haplotype caller vcf SNP snv
5.9 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
1
vote
3
replies
2.6k
views
Count SNPs per individual FAST!
plink SNP gwas
updated 6.0 years ago by 10k • written 6.0 years ago by ★ 2.5k
0
votes
0
replies
1.2k
views
Software to Filter de novo INDELs
de novo indels software
6.2 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
0
votes
1
reply
1.6k
views
Print Minimum Depth from a VCF
bcftools vcf
updated 6.3 years ago by 161k • written 6.3 years ago by ★ 2.5k
0
votes
1
reply
1.5k
views
UCSC Roadmap Epigenomics Hub: "Summary" tracks
roadmap ucsc
updated 6.3 years ago by ▴ 50 • written 6.4 years ago by ★ 2.5k
6
votes
5
replies
4.9k
views
bcftools merge failed: incorrect number of PL fields
bcftools merge vcf
6.3 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
2
votes
3
replies
2.0k
views
How to determine parent of origin of phased variants when all members are het
phase vcf
updated 6.4 years ago by 47k • written 6.4 years ago by ★ 2.5k
4
votes
2
replies
1.8k
views
RefSeq Transcript without a 5'UTR?
refseq
6.4 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
0
votes
3
replies
1.9k
views
Physical/Fragment Coverage for Paired-Ends: Read Length
coverage
updated 6.5 years ago by 104k • written 6.5 years ago by ★ 2.5k
3
votes
2
replies
4.6k
views
pysam + multiple_iterators = Type Error during multiprocessing
python
6.6 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
6
votes
6
replies
7.3k
views
pysam: filtering reads based on flag
python samtools pysam hts
updated 17 months ago by 43k • written 8.8 years ago by ★ 2.5k
0
votes
1
reply
1.1k
views
Order mapped segements based on positions within the orginal read
long-read
6.8 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
7
votes
3
replies
2.1k
views
How to Define Structural Variation Breakpoint Positions?
Structural Variation SV Breakpoint
updated 7.0 years ago by ★ 2.9k • written 7.0 years ago by ★ 2.5k
6
votes
3
replies
1.7k
views
BWA MEM Supplementary Tag Position (0 or 1 based)
bwa supplementary tag
7.0 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
22
votes
6
replies
3.3k
views
Calculating Coverage Using CIGAR String
samtools bamtools coverage
7.0 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
7
votes
1
reply
1.7k
views
LAST Aligner: last-train output
last
7.0 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
11
votes
1
reply
3.7k
views
Oxford Nanopore BWA MEM alignments
Oxford Nanopore long reads bwa bwa mem
updated 7.0 years ago by 47k • written 7.0 years ago by ★ 2.5k
0
votes
0
replies
3.2k
views
Machine Learning on noisy genome data. Scikit-learn python
scikit-learn python machine learning statistics
updated 7.1 years ago by 20 • written 8.7 years ago by ★ 2.5k
3
votes
1
reply
2.2k
views
Defining LoF mutations with Annovar
SNV Annovar
updated 7.2 years ago by ★ 1.4k • written 7.2 years ago by ★ 2.5k
0
votes
2
replies
2.5k
views
Hardy-Weinberg Equilbrium for multiple loci
HWE
updated 7.4 years ago by 47k • written 7.4 years ago by ★ 2.5k
0
votes
0
replies
1.5k
views
HLI (10k WGS paper) Extented Confidence Regions Positions for SNV analysis
HLI SNV SNP GiaB
7.4 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
0
votes
1
reply
1.4k
views
Mendelian Inheritance Rate (CNV)
CNV Mendel Mendelian Inheritance
7.7 years ago by QVINTVS_FABIVS_MAXIMVS ★ 2.5k
93 results • Page 1 of 2
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