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684 results • Page
2 of 14
Sort: Votes
Rank
Views
Votes
Replies
4
votes
11
replies
890
views
Redirection of Duplicate PMIDs
pubmed
pmid
updated 24 days ago by
LauferVA
4.2k • written 25 days ago by
dominickd
• 0
4
votes
4
replies
3.0k
views
CNVkit for somatic copy number detection
cnv
cnvkit
exome
WES
updated 4 days ago by
Anitha
• 0 • written 5.1 years ago by
stephaniem
• 0
4
votes
6
replies
3.8k
views
How to interpret DEXseq results in therms of significance
DEXseq
RNA-Seq
exon
updated 12 days ago by
Sara
▴ 30 • written 6.7 years ago by
Lila M
★ 1.2k
4
votes
5
replies
455
views
Figures are disappeared from html report of SnpEff
HTML
SnpEff
19 days ago by
analyst
▴ 50
4
votes
5
replies
3.4k
views
How to compare compare two Sam files to check mapping
alignment
updated 10 days ago by
DavidStreid
▴ 90 • written 6.4 years ago by
madhu.9124
▴ 60
4
votes
2
replies
276
views
How can I analyze normalized expression data?
DEseq2
RNA-seq
9 days ago by
mnx0723
• 0
4
votes
1
reply
204
views
Extracting only 4-fold degenerate sites from gene sequences/alignments?
alignments
4 days ago by
J.
▴ 40
4
votes
3
replies
2.9k
views
How to solve the error 'ERROR::MATE_NOT_FOUND:Found xxx unpaired mates' when run SamToFastq
samtofasq
picard
validatesamfile
updated 9 days ago by
Pierre Lindenbaum
161k • written 9 days ago by
Lila M
★ 1.2k
4
votes
6
replies
3.9k
views
Taking the difference of two VCFs (or removing singletons)
genome
sequencing
singleton
SNP
filter
updated 18 days ago by
Andres
▴ 20 • written 9.7 years ago by
hermathena
▴ 40
4
votes
8
replies
773
views
Create a new bed file with all pairwise combinations between two other bed files, based on bp distance
SNPs
BED
eqtl
bedtools
updated 21 days ago by
Alex Reynolds
35k • written 22 days ago by
J
▴ 10
4
votes
2
replies
270
views
Analysis of intronic reads included scRNA-seq data
single-cell
updated 14 days ago by
Ram
43k • written 15 days ago by
carolofharvest
▴ 40
4
votes
9
replies
2.1k
views
Legend and hap files for imputation with 38 build
reference
38build
impute
imputation
19 days ago by
anna
▴ 20
4
votes
6
replies
1.2k
views
Soft-clipping read ends based on read group
ancient
molecule
at
bam
DNA
RG
ends
clipping
damage
updated 10 days ago by
chenl
▴ 10 • written 2.5 years ago by
Martyna
• 0
4
votes
9
replies
2.7k
views
Tool:
CANEapp, a user-friendly application for automated next generation transcriptomic data analysis
RNA-Seq
written 8.3 years ago by
dvelmeshev
• 0
4
votes
1
reply
358
views
How to use limma to find differentially expressed genes in response to a continuous variable
limma
voom
R
19 days ago by
pairedttest
▴ 10
4
votes
7
replies
427
views
How does gene length effect the number of reads mapped
RNA-seq
CPM
sequencing
4 days ago by
Chen
• 0
4
votes
7
replies
636
views
Very low RNA splicing rate for pulmonary AT2 cells
RNA-velocity
scVelo
scRNA-seq
splicing
19 days ago by
e.r.zakiev
▴ 210
4
votes
3
replies
442
views
Source other conda environments in a nextflow pipeline when nextflow itself is in a conda environment?
hpc
conda
nextflow
updated 21 days ago by
Arup Ghosh
3.2k • written 22 days ago by
chaco001
▴ 40
4
votes
15
replies
1.7k
views
how to test for differential expression in samples where a global increase in gene expression is expected
edgeR
DESeq
Differential-Expression
RNA-Seq
updated 14 days ago by
Gordon Smyth
★ 7.2k • written 5 months ago by
raplayer
▴ 10
4
votes
9
replies
436
views
Faster Needleman-Wunsch rapid global alignment of two sequences?
Needleman-Wunsch
alignment
1 day ago by
Gabriel R.
★ 2.9k
4
votes
0
replies
159
views
Herald:
The Biostar Herald for Monday, April 29, 2024
herald
19 days ago by
Biostar
2.8k
4
votes
9
replies
2.2k
views
6 follow
Same sequencing sample in multiple lanes. How to analyse it?
sequencing
bowtie2
alignment
samtools
ngs
updated 15 days ago by
ST
• 0 • written 2.2 years ago by
Federico
• 0
4
votes
12
replies
4.9k
views
10 follow
How to analyze Infinium Mouse Methylation BeadChip array data?
Methylation
Experience
Illumina
Mouse
updated 9 days ago by
Tawny
▴ 180 • written 3.0 years ago by
julia_geh
▴ 20
4
votes
6
replies
808
views
7 follow
Heatmap and rna-seq
RNA-Seq
Heatmap
updated 21 days ago by
dsull
★ 6.0k • written 25 days ago by
qudrat.nii
▴ 10
4
votes
7
replies
471
views
In one PCA plot, can I calculate the percentage of different factors that contribute to the PCA?
PCA
R
VARIANCE
updated 1 day ago by
marco.barr
▴ 130 • written 3 days ago by
diqixiaoyaoer
▴ 20
4
votes
1
reply
262
views
LD-prune variants while maintaining a list of SNPs
snp
vcf
plink
filtering
independent
updated 12 days ago by
zx8754
11k • written 14 days ago by
Jautis
▴ 560
3
votes
8
replies
6.6k
views
7 follow
GATK genomicsDBimport intervals for WGS
gatk
genomicsdbimport
updated 16 days ago by
Sd
• 0 • written 5.1 years ago by
Nicolas Rosewick
11k
3
votes
3
replies
297
views
Getting the nucleotide sequence of proteins, having their UniProt IDs
Nucleotide
Genomic
Sequence
Uniprot
Proteins
updated 26 days ago by
GenoMax
142k • written 26 days ago by
Mariana
▴ 40
3
votes
4
replies
324
views
Truncated metadata file report from ENA Portal API
ena
python
8 days ago by
Giulia
• 0
3
votes
2
replies
195
views
Publish a Letter in higher impact vs Research article in lower impact
Article
Letter
Journal
updated 5 days ago by
ATpoint
82k • written 5 days ago by
jennyp0706
• 0
3
votes
5
replies
406
views
Converting CRAM to FastQ
GATK
samtools
cram
SamToFastq
fastq
15 days ago by
Maverick
▴ 10
3
votes
5
replies
346
views
Generating mpileup file using samtools
mpileup
samtools
updated 15 days ago by
Joe
21k • written 15 days ago by
Ruqaiya
• 0
3
votes
5
replies
355
views
Per base sequence content error in RNAseq analysis
RNA-seq
analysis
updated 26 days ago by
GenoMax
142k • written 26 days ago by
ahmad.sajad4541
• 0
3
votes
3
replies
371
views
Sequence read length shorter than flow cell specification
illumina
NGS
sequencing
updated 23 days ago by
swbarnes2
14k • written 23 days ago by
M
• 0
3
votes
0
replies
154
views
News:
Interested in Spatial Omics?
Bioconductor
Spatial-Omics
Spatial-Transcriptomics
updated 25 days ago by
Ram
43k • written 25 days ago by
carlopecoraro2
★ 2.5k
3
votes
4
replies
424
views
Why gatk VariantAnnotator required bam and coverage files
gatk
VariantAnnotator
23 days ago by
QX
• 0
3
votes
6
replies
760
views
Ciriquant not configuring hisat2 indexed files
ciriquant
26 days ago by
Atul K.
• 0
3
votes
5
replies
644
views
SLURM submission problem: Indexing the Reference Genome is not done in STAR
align
RNA-Seq
linux
STAR
26 days ago by
n_navy
• 0
3
votes
3
replies
229
views
Getting differential ChIP-seq peaks between conditions after calling consensus peaks
MAnorm
ChIP-seq
consensus
peaks
updated 2 days ago by
ATpoint
82k • written 3 days ago by
Alexandra
• 0
3
votes
2
replies
317
views
p-value and Boneferroni adjusted p-value the same in R
Bonferroni
R
Statistics
p-value
Fisher
26 days ago by
kristiewyleung
• 0
3
votes
3
replies
2.5k
views
How to make a TSS enrichment plot in ATAC-seq analysis?
ATAC
updated 23 days ago by
sp
• 0 • written 22 months ago by
Dan
▴ 180
3
votes
1
reply
283
views
Seurat merge and batch correction
Seurat
updated 25 days ago by
Ram
43k • written 25 days ago by
sooni
▴ 20
3
votes
3
replies
554
views
Free/open source 23andme-like analysis
SNPs
genomics
NGS
VCF
updated 28 days ago by
swbarnes2
14k • written 29 days ago by
noodle
▴ 580
3
votes
1
reply
218
views
Long reads and fixing of mate-pair issues/marking duplicates with samtools
mate-pair
samtools
alignment
updated 5 days ago by
aw7
▴ 300 • written 9 days ago by
Zeng Hao
▴ 40
3
votes
4
replies
297
views
Would you bother re-mapping RNA-seq data from an old GRCh38 build to a newer version?
RNA-seq
patch
freeze
genome
updated 1 day ago by
Jeremy Leipzig
22k • written 2 days ago by
Ali
• 0
3
votes
3
replies
754
views
KissDE and batch effect
kissDE
kissplice
26 days ago by
david.b.rombaut
▴ 10
3
votes
3
replies
373
views
genome assembly records not present in assembly_summary.txt
ncbi
bacteria
assembly
updated 22 days ago by
GenoMax
142k • written 22 days ago by
sapuizait
▴ 10
3
votes
3
replies
365
views
Kraken2 database
kraken
microbialdb
database
krakendb
kraken2
updated 4 days ago by
Mathew
▴ 140 • written 7 days ago by
Christopher
• 0
3
votes
4
replies
754
views
Mapping cDNA sequence of a single gene to a genome not hosted at UCSC server (without Blat)
mapping
26 days ago by
rahu
• 0
3
votes
0
replies
1.1k
views
Tool:
Sars-Cov-2 Genome & ACE 2 Exploration
sequence
alignment
SNP
genome
13 days ago by
Ibrahim Tanyalcin
★ 1.2k
684 results • Page
2 of 14
Recent Votes
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142k
Can you create a small test database (`makeblastdb`) from your query file and try to run the search against the same file and see if that w…
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See the exploration of isoform precision vs read length and sequencing depth in our paper: https://doi.org/10.1093/nar/gkad1167. Table 1 o…
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Why does the tool require gene symbols and not ensembl ids? Is it retrieving information from somewhere else? If so, your best bet is to fi…
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Thank you so much for your response . Really appreciate it. I will try the way you mentioned and will get back if I have any query
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Yes, `bedmap` will perform operations on one or two BED files.
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