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Showing :
questions
2
votes
6
replies
1.1k
views
BBMap's repair.sh swaps sequences between input files
repair.sh
bbmap
14 months ago by
Ram
43k
5
votes
7
replies
1.7k
views
Parsing VEP tab-delimited output (the "Extra" column)
tab
vep
updated 4 months ago by
iraun
6.2k • written 20 months ago by
Ram
43k
7
votes
8
replies
2.0k
views
BBSplit index creation seems to use a subset of the references provided
bbsplit
bbmap
xenograft
bbtools
22 months ago by
Ram
43k
0
votes
0
replies
688
views
Error while subsetting VCF - error doesn't check out with (z)grep
bcftools
vcf
2.7 years ago by
Ram
43k
0
votes
0
replies
1.1k
views
EOF marker absent in VCF - can this be safely ignored?
bcftools
VCF
EOF
2.7 years ago by
Ram
43k
0
votes
4
replies
1.3k
views
STAR errors out during alignment
RNA-seq
STAR
alloc
2.8 years ago by
Ram
43k
1
vote
1
reply
1.1k
views
IGV use --name command line option in a batch file
igv
2.8 years ago by
Ram
43k
8
votes
4
replies
1.4k
views
rsync/rclone as a snakemake rule
rclone
rsync
snakemake
3.0 years ago by
Ram
43k
0
votes
0
replies
566
views
Compare segment data produced by CopywriteR and similar tools
copywriter
cna
3.0 years ago by
Ram
43k
10
votes
8
replies
1.2k
views
separate_rows, but keep related ones together
r
variants
multiallelic
updated 3.3 years ago by
zx8754
11k • written 3.3 years ago by
Ram
43k
4
votes
3
replies
3.9k
views
Use bcftools to filter a VCF with multiple filter flags
bcftols
vcf
filter
3.7 years ago by
Ram
43k
0
votes
2
replies
2.3k
views
bcftools annotate from ID file in 1 VCF to an INFO field in another VCF
bcftools
annotate
3.9 years ago by
Ram
43k
9
votes
3
replies
12k
views
PI_HAT and Z-values for relationships (PLINK IBD calculation)
plink
PI_HAT
IBD
23 months ago by
Ram
43k
2
votes
6
replies
1.1k
views
bedops sort-bed inconsistencies
bedops
sort-bed
updated 4.2 years ago by
Alex Reynolds
35k • written 4.2 years ago by
Ram
43k
4
votes
2
replies
818
views
Customize bedtools intersect output
bedtools
bed
intersect
4.2 years ago by
Ram
43k
3
votes
1
reply
1.4k
views
"Update" Genotype fields from one VCF file to another
vcf
updated 4.4 years ago by
Biostar
20 • written 5.3 years ago by
Ram
43k
11
votes
7
replies
9.3k
views
Duplicate @Sq Lines In Sam File Header
samtools
duplicates
4.6 years ago by
Ram
43k
8
votes
12
replies
1.9k
views
Metric to use for RNAseq expression matrix
gene-expression
TPM
RNA-Seq
counts
batch-effect
16 days ago by
Ram
43k
7
votes
9
replies
1.1k
views
Identify mislabeled sample from RNAseq profile
rnaseq
4.8 years ago by
Ram
43k
1
vote
4
replies
1.2k
views
Strange esearch behavior
ncbi
eutils
esearch
5.5 years ago by
Ram
43k
2
votes
2
replies
1.5k
views
Exclude Replaced or Discontinued UIDs from an reutils.esearch operation
eutils
ncbi
esearch
updated 5.5 years ago by
GenoMax
142k • written 5.5 years ago by
Ram
43k
6
votes
8
replies
5.9k
views
Check if REF allele is minor allele in any variant
minor-allele
REF
variant
2.2 years ago by
Ram
43k
14
votes
23
replies
8.1k
views
6 follow
Calculate percentage of bases covered less than nX in targeted sequencing experiment
coverage
NGS
targeted sequencing
updated 12 months ago by
anii
• 0 • written 9.3 years ago by
Ram
43k
2
votes
1
reply
2.2k
views
bcftools annotate picks one attribute but not another
bcftools
annotate
vcf
6.4 years ago by
Ram
43k
10
votes
12
replies
4.9k
views
6 follow
Subset VCF file by comparing CHROM,POS,REF and ALT
vcf
subset
updated 6.4 years ago by
Pierre Lindenbaum
161k • written 6.4 years ago by
Ram
43k
6
votes
19
replies
3.9k
views
bedops vcf2bed core dump
bedops
vcf2bed
6.5 years ago by
Ram
43k
5
votes
3
replies
2.2k
views
Recompile bedops with increased TOKENS_MAX_LENGTH
bedops
sort-bed
updated 6.5 years ago by
Alex Reynolds
35k • written 6.5 years ago by
Ram
43k
10
votes
20
replies
3.0k
views
bedops vcf2bed eats up all allocated memory
bedops
vcf2bed
hpc
6.5 years ago by
Ram
43k
0
votes
0
replies
1.1k
views
Working on an old pipeline, need to gain access to a specific version of plinkseq
plinkseq
10 months ago by
Ram
43k
2
votes
3
replies
3.6k
views
PLINK genome file - understanding the output
plink
ibd
ibs
6.6 years ago by
Ram
43k
5
votes
12
replies
1.4k
views
GATK AnnotateLikelyPathogenic strange error
gatk
java
6.6 years ago by
Ram
43k
9
votes
10
replies
1.9k
views
Variants called differ dramatically between runs
vcf
variants
updated 7.3 years ago by
Steven Lakin
★ 1.8k • written 7.3 years ago by
Ram
43k
8
votes
17
replies
2.6k
views
Merge data rich in NA
r
python
data
updated 7.4 years ago by
Liun
▴ 30 • written 7.4 years ago by
Ram
43k
2
votes
2
replies
2.2k
views
plink and mitochondrial DNA
plink
updated 7.5 years ago by
chrchang523
10k • written 7.5 years ago by
Ram
43k
5
votes
7
replies
3.3k
views
BLOSUM80 values differ - but what's the reason?
substitution matrix
BLOSUM
updated 8.0 years ago by
gearoid
▴ 200 • written 8.0 years ago by
Ram
43k
0
votes
0
replies
1.3k
views
Trying to annotate genes using R and eutils, curious bug
r
reutils
8.6 years ago by
Ram
43k
1
vote
2
replies
1.9k
views
Confusing HGVS notation for RNA changes
HGVS
RNA
23 months ago by
Ram
43k
0
votes
2
replies
1.8k
views
SNPEFF_GENE_NAME annotates with accession numbers that are not intuitively mapped to a single field
snpeff
accession
RNA-Seq
23 months ago by
Ram
43k
2
votes
6
replies
2.7k
views
Benefit of platinum genomes in WGS experiment
WGS
platinum genomes
2.1 years ago by
Ram
43k
0
votes
1
reply
2.2k
views
Custom tracks on UCSC Genome Browser with a way to control items displayed by upper and lower cutoff
ucsc genome browser
custom tracks
threshold
updated 9.7 years ago by
Alex Reynolds
35k • written 9.9 years ago by
Ram
43k
1
vote
6
replies
2.1k
views
Find data on linkage among a bunch of known SNPs
linkage
SNP
2.6 years ago by
Ram
43k
41 results • Page
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