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Showing :
questions
22
votes
10
replies
8.8k
views
9 follow
fastq compression tools of choice
fastq
compression
updated 3 months ago by
Xi
• 0 • written 8.7 years ago by
Richard
▴ 590
1
vote
2
replies
2.5k
views
annotate VCF file with LRG ?
LRG
vcf
annotation
updated 2.5 years ago by
Ram
44k • written 9.8 years ago by
Richard
▴ 590
6
votes
8
replies
3.0k
views
IGV over SSH?
IGV
SSH
remote
updated 2.9 years ago by
Ram
44k • written 3.4 years ago by
Richard
▴ 590
0
votes
1
reply
1.2k
views
SnpSift set intersection with EFF annotations
snpsift
variant
annotation
parsing
3.4 years ago by
Richard
▴ 590
0
votes
1
reply
703
views
classify contaminants in bisulfite treated whole genome data
wgbs
updated 3.6 years ago by
Friederike
8.9k • written 3.6 years ago by
Richard
▴ 590
0
votes
3
replies
942
views
creating container - should it contain a workflow manager?
singularity
snakemake
nextflow
updated 4.0 years ago by
Jeremy Leipzig
22k • written 4.0 years ago by
Richard
▴ 590
0
votes
2
replies
1.3k
views
matched designed sequence in nanopore reads
sequence
alignment
updated 4.5 years ago by
zubenel
▴ 120 • written 4.5 years ago by
Richard
▴ 590
1
vote
2
replies
2.3k
views
multiqc change sample names
multiqc
4.9 years ago by
Richard
▴ 590
1
vote
4
replies
1.6k
views
UMI with MACS
UMI
MACS
ChIP-Seq
updated 5.1 years ago by
i.sudbery
19k • written 5.1 years ago by
Richard
▴ 590
4
votes
8
replies
3.6k
views
beginner snakemake scatter gather help
snakemake
5.2 years ago by
Richard
▴ 590
2
votes
1
reply
3.5k
views
does bwa mem use base qualities?
bwa
updated 22 months ago by
Ram
44k • written 8.3 years ago by
Richard
▴ 590
0
votes
0
replies
961
views
MD tags - important for analysis tools?
BAM
MD
5.3 years ago by
Richard
▴ 590
2
votes
3
replies
2.6k
views
miRNA with UMI - any papers showing this improves accuracy?
miRNA
UMI
updated 5.4 years ago by
Rituriya
▴ 40 • written 6.0 years ago by
Richard
▴ 590
0
votes
1
reply
2.3k
views
how to fix old VCF headers
VCF
5.7 years ago by
Richard
▴ 590
2
votes
1
reply
911
views
Human Promethion data available?
sequence
updated 5.7 years ago by
WouterDeCoster
47k • written 5.7 years ago by
Richard
▴ 590
0
votes
1
reply
953
views
Germline genome ground truth sets
ground truth
updated 5.7 years ago by
Biostar
20 • written 5.8 years ago by
Richard
▴ 590
0
votes
0
replies
1.3k
views
merge aligned read pairs that overlap - keep the bases that match the reference
paired-end
illumina
5.9 years ago by
Richard
▴ 590
15
votes
9
replies
7.6k
views
6 follow
compare SV results across samples - Manta, Delly
manta
delly
wgs
illumina
updated 2.7 years ago by
dlekrud456
• 0 • written 6.0 years ago by
Richard
▴ 590
2
votes
12
replies
2.4k
views
merge Bed entries with both ends within maximum distance
next-gen
alignment
updated 6.2 years ago by
Alex Reynolds
35k • written 6.2 years ago by
Richard
▴ 590
0
votes
2
replies
3.9k
views
extract reads from BAM whose fragments overlap a specified region
alignment
updated 6.2 years ago by
Pierre Lindenbaum
162k • written 6.2 years ago by
Richard
▴ 590
2
votes
1
reply
952
views
estimate error profile from aligned Illumina reads
illumina
error_rate
updated 6.4 years ago by
michael.ante
★ 3.8k • written 6.4 years ago by
Richard
▴ 590
0
votes
4
replies
2.5k
views
auto trimming of adapter and 6 base normalizing sequence from miRNA reads
microRNA
trimming
adapters
updated 21 months ago by
Ram
44k • written 8.5 years ago by
Richard
▴ 590
4
votes
4
replies
2.5k
views
simulating illumina data with spiked variants
simulated-data
illumina
updated 2.6 years ago by
Ram
44k • written 9.9 years ago by
Richard
▴ 590
0
votes
2
replies
2.0k
views
proximal duplicate parameters - HiSeq X
duplicates
proximal
updated 7.3 years ago by
GenoMax
142k • written 7.3 years ago by
Richard
▴ 590
2
votes
3
replies
2.4k
views
Affy 500K positions in hg38
affymetrix
hg38
updated 8.5 years ago by
Sean Davis
27k • written 8.5 years ago by
Richard
▴ 590
6
votes
7
replies
4.5k
views
variant calling on amplicon data
amplicon
variant
updated 20 months ago by
Ram
44k • written 8.7 years ago by
Richard
▴ 590
1
vote
1
reply
2.3k
views
tools using CRAM format?
cram
updated 20 months ago by
Ram
44k • written 8.7 years ago by
Richard
▴ 590
2
votes
4
replies
2.4k
views
merging bed coordinates - get depth and information about merged regions
bed
bedtools
updated 19 months ago by
Ram
44k • written 8.8 years ago by
Richard
▴ 590
0
votes
0
replies
2.1k
views
alt aware analysis tools?
alt-contigs
updated 16 months ago by
Ram
44k • written 9.0 years ago by
Richard
▴ 590
6
votes
2
replies
2.3k
views
databases of variants
API
dbSNP
SNV
updated 23 months ago by
Ram
44k • written 9.1 years ago by
Richard
▴ 590
1
vote
1
reply
2.1k
views
STR (short tandem repeats) ID from bam file?
str
bam
updated 24 months ago by
Ram
44k • written 9.2 years ago by
Richard
▴ 590
16
votes
5
replies
4.8k
views
sam/bam file handling -> new tools?
sam
markduplicates
sort
bam
updated 24 months ago by
Ram
44k • written 9.2 years ago by
Richard
▴ 590
0
votes
0
replies
1.6k
views
Fraction of human genomes that are homozygous
SNP
human-genome
updated 2.1 years ago by
Ram
44k • written 9.3 years ago by
Richard
▴ 590
1
vote
5
replies
2.0k
views
quantifying ribosomal content in Illumina libraries
ribosomal
updated 2.1 years ago by
Ram
44k • written 9.3 years ago by
Richard
▴ 590
0
votes
1
reply
3.3k
views
18S and 28S in hg19
reference
coordinates
ribosome
updated 2.2 years ago by
Ram
44k • written 9.4 years ago by
Richard
▴ 590
0
votes
2
replies
1.6k
views
illumina reads - dots vs. 'N's
fastq
illumina
updated 3.1 years ago by
Ram
44k • written 9.6 years ago by
Richard
▴ 590
2
votes
6
replies
1.9k
views
Edit distance between microRNAs
microRNA
updated 2.5 years ago by
Ram
44k • written 9.8 years ago by
Richard
▴ 590
0
votes
0
replies
2.5k
views
COSMIC fusion transcript download
transcript
cosmic
updated 2.6 years ago by
Ram
44k • written 9.9 years ago by
Richard
▴ 590
7
votes
3
replies
7.2k
views
Strelka Indel Allele Counts
somatic
indel
updated 10.1 years ago by
Cyriac Kandoth
6.1k • written 11.7 years ago by
Richard
▴ 590
0
votes
2
replies
3.9k
views
CNV from FFPE genomes
FFPE
CNV
genome
updated 2.7 years ago by
Ram
44k • written 10.1 years ago by
Richard
▴ 590
17
votes
21
replies
5.7k
views
6 follow
Need Recommendations For Aligning Longer (2X250Bp) Reads
aligner
updated 11.2 years ago by
kanwarjag
★ 1.2k • written 11.6 years ago by
Richard
▴ 590
9
votes
3
replies
3.2k
views
Mate Pair Alignment Summary
illumina
aligner
updated 11.8 years ago by
Rm
8.3k • written 11.8 years ago by
Richard
▴ 590
3
votes
1
reply
2.6k
views
Blast Indel Calibration
blastn
11.8 years ago by
Richard
▴ 590
3
votes
1
reply
1.9k
views
Hl60 Copy Number
copynumber
updated 11.8 years ago by
Sean Davis
27k • written 11.8 years ago by
Richard
▴ 590
0
votes
1
reply
3.9k
views
Convert Ucsc Files To Gtf For Tophat
tophat
ucsc
gtf
updated 11.9 years ago by
Ashwin
▴ 110 • written 11.9 years ago by
Richard
▴ 590
3
votes
5
replies
3.9k
views
Biopython Translate With N In The Sequence
biopython
updated 12.0 years ago by
Geparada
★ 1.5k • written 12.0 years ago by
Richard
▴ 590
0
votes
5
replies
3.2k
views
Blastn Standalone Simple Query Hanging
blastn
updated 12.0 years ago by
Michael
54k • written 12.0 years ago by
Richard
▴ 590
2
votes
1
reply
3.7k
views
Get Snps, Indels From Biopython Blast Parser
biopython
blast
variant
updated 12.0 years ago by
Ryan Thompson
★ 3.6k • written 12.0 years ago by
Richard
▴ 590
5
votes
3
replies
4.1k
views
Biopython Examples For Writing Genbank Files?
biopython
genbank
12.0 years ago by
Richard
▴ 590
2
votes
2
replies
2.3k
views
Biopython How To Access Fa_Z-Score In Bio.Align.Multipleseqalign
biopython
12.0 years ago by
Richard
▴ 590
54 results • Page
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