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Limit : this month
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351 results • Page
3 of 8
Sort: Views
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Views
Votes
Replies
1
vote
5
replies
266
views
Merging bam files from different runs
samtools
bam
updated 17 days ago by
GenoMax
140k • written 17 days ago by
shpak.max
▴ 50
2
votes
2
replies
262
views
compare dimplot(single cell)
DEG
scRNAseq
12 days ago by
kayah
• 0
2
votes
4
replies
257
views
repeatseq compilation issues
NGS
Repeats
repeatseq
repeatexpansion
Genomics
updated 16 days ago by
Michael
54k • written 16 days ago by
adarsh_pp
▴ 40
1
vote
11
replies
254
views
struggle to get fasta files from ucsc goldenPath
ucsc
getfasta
fasta
updated 2 hours ago by
GenoMax
140k • written 8 hours ago by
Lila M
★ 1.2k
1
vote
3
replies
254
views
Average expression of a sample in single-cell data
single-cell
rna-seq
updated 9 days ago by
dsull
★ 5.7k • written 10 days ago by
newuser2024
• 0
0
votes
1
reply
254
views
Tumorportal
Tumorportal
updated 23 days ago by
Ram
43k • written 25 days ago by
ananta.kapoor
• 0
1
vote
5
replies
254
views
how to convert SummarizedExperiment files to DESeqDataSet??
scRNA-seq
DEG
DESeq2
updated 16 days ago by
Haci
▴ 550 • written 16 days ago by
kayah
• 0
0
votes
1
reply
253
views
I can't add VAF from population for all of my variants from VCF file
vaf
vcf
genomics
gnomad
allelicfrequency
updated 12 days ago by
Arton
• 0 • written 14 days ago by
Samuel
▴ 20
1
vote
2
replies
253
views
WGCNA for co-expression network analysis
WGCNA
20 days ago by
Priya
• 0
1
vote
3
replies
252
views
How to validate the assembly completeness of unaligned reads ?
MaSuRCA
SPAdes
updated 8 days ago by
GenoMax
140k • written 8 days ago by
Sony
▴ 10
2
votes
8
replies
250
views
Piping samtools to R
R
NGS
bash
samtools
1 day ago by
joe
▴ 470
1
vote
1
reply
249
views
Codon Usage Analysis
codon
updated 27 days ago by
zx8754
11k • written 27 days ago by
jl056933
• 0
1
vote
1
reply
245
views
BAM to CRAM and BAM recover with smaller size
BAM
samtools
CRAM
updated 13 days ago by
GenoMax
140k • written 13 days ago by
geocarvalho
▴ 360
1
vote
2
replies
244
views
What GC content should I expect?
RNA-seq
GC-content
updated 11 days ago by
ATpoint
81k • written 12 days ago by
BioinfGuru
★ 1.6k
0
votes
4
replies
242
views
Coverage observed in introns in the Knockdown genes but not in knockout genes
RNA-seq
STAR
IGV
7 hours ago by
rohitsatyam102
▴ 840
0
votes
3
replies
242
views
FindAllMarkers not working (Error (data layers are not joined. Please run JoinLayersWarning: When testing 1 versus all)
FindAllMarkers
seurat
re-clustering
4 hours ago by
Nitin
• 0
0
votes
3
replies
240
views
data background noise
noise
data
updated 8 days ago by
dthorbur
★ 1.7k • written 14 days ago by
marco.barr
▴ 30
2
votes
3
replies
240
views
Extracting information from my VCF file
VCF
updated 2 days ago by
bioruffo
▴ 40 • written 2 days ago by
realtreeecat
• 0
0
votes
2
replies
239
views
How to interpret merged_calls result of command line from CNVpytor
CNVpytor
updated 18 days ago by
GenoMax
140k • written 18 days ago by
Nannapat
• 0
1
vote
2
replies
238
views
Upset plot
upsetplot
10 days ago by
Chris
▴ 260
0
votes
1
reply
236
views
updateR() error
R
update
updated 10 days ago by
dthorbur
★ 1.7k • written 13 days ago by
marco.barr
▴ 30
1
vote
1
reply
235
views
building large dataset transcriptome
de-novo
transcriptome
updated 27 days ago by
GenoMax
140k • written 27 days ago by
Raygozak
★ 1.4k
0
votes
0
replies
234
views
help a general guideline of bioinformatics strategy to analize gut metagenome virome data from stool samples
in
Guideline
virome
gut
updated 26 days ago by
Pierre Lindenbaum
160k • written 26 days ago by
Israel
• 0
1
vote
1
reply
234
views
--busco_db and --busco_seed_species with RNA-seq
RNA-seq
Funannotate
busco
13 days ago by
sansan_96
▴ 50
0
votes
2
replies
233
views
nf-core/rnaseq, problem with ensembl reference
nfcore
nextflow
ensembl
rnaseq
10 days ago by
Filip
• 0
0
votes
0
replies
233
views
WGCNA module of interest, correlate GENES with trait
wgcna
26 days ago by
Anders
• 0
1
vote
3
replies
232
views
How to predict the affinity between Protein and RNA?
Protein-RNAinteractions
prediction
deeplearning
updated 10 days ago by
dthorbur
★ 1.7k • written 14 days ago by
Alex
• 0
0
votes
2
replies
231
views
How to get genes in a gene set in msigdb?
msigdb
17 days ago by
Chris
▴ 260
1
vote
2
replies
231
views
BWA MEM Alignment mapped small part of the reads!!
bwa
mem
updated 2 days ago by
bioruffo
▴ 40 • written 2 days ago by
Bunit
• 0
0
votes
2
replies
229
views
Problem merging plink files for somatic variants.
plink
somatic
vcf
18 days ago by
Palgrave
▴ 110
2
votes
2
replies
227
views
singlecell annotation
scRNA-seq
annotation
1 day ago by
kayah
• 0
0
votes
1
reply
225
views
Issue with bigWigSummary utility of Kent/UCSC utilities
bigWig
UCSC
updated 13 days ago by
Pierre Lindenbaum
160k • written 13 days ago by
eeb74
• 0
0
votes
3
replies
225
views
Microarray pbrobe ID to gene ID problem
microarray
updated 13 days ago by
GenoMax
140k • written 14 days ago by
mnx0723
• 0
0
votes
1
reply
225
views
PCA script correction
correction
script
PCA
updated 5 days ago by
BioinfGuru
★ 1.6k • written 5 days ago by
prity6459
• 0
0
votes
1
reply
225
views
Where to find a GTF, GFF, or SAF for RheMac2 genome
Annotations
updated 26 days ago by
GenoMax
140k • written 27 days ago by
Sillyman
• 0
0
votes
1
reply
224
views
Resolution of ambiguous calls in germline vcf
vcfs
germline
qc
updated 27 days ago by
Jeremy Leipzig
22k • written 27 days ago by
Raygozak
★ 1.4k
1
vote
2
replies
224
views
Deseq generating warning "the model matrix is not full rank"
deseq
updated 2 days ago by
bioruffo
▴ 40 • written 3 days ago by
MAPK2
▴ 40
0
votes
1
reply
222
views
deepTools computeMatrix output import into R for enrichment calculations
R
deeptools
computeMatrix
deepTools
updated 13 days ago by
Pierre Lindenbaum
160k • written 13 days ago by
eeb74
• 0
1
vote
2
replies
219
views
Is it possible to see so little adipocyte in white adipose tissue?
scRNA-seq
1 day ago by
kayah
• 0
2
votes
1
reply
219
views
ATAC-seq downstream analysis
ATAC-seq
diffbind
updated 29 days ago by
ATpoint
81k • written 29 days ago by
maplewj
▴ 10
0
votes
1
reply
219
views
Best Freebayes parameter for haploid variant detection
Freebayes
detection
variant
updated 26 days ago by
LauferVA
4.1k • written 28 days ago by
A_heath
▴ 160
0
votes
2
replies
219
views
comparing VCF files
long-reads
VCF
variants
ONT
nanopore
2 days ago by
eesiribloom
▴ 50
1
vote
1
reply
215
views
Integrate Chipseq and Atacseq data?
ATAC-seq
Chip-Seq
updated 26 days ago by
Yogi
▴ 70 • written 27 days ago by
DINESHR
▴ 10
2
votes
2
replies
214
views
Seeking Help with Cell Ranger Multi Error in fixed-RNA-profiling
chromium
fixed-RNA-profiling
cellranger
updated 6 days ago by
naveau
• 0 • written 14 days ago by
lam
▴ 10
1
vote
1
reply
214
views
How to download raw data such as fastq file from MG-RAST?
MG-RAST
updated 24 days ago by
GenoMax
140k • written 25 days ago by
Adi
▴ 10
2
votes
3
replies
213
views
Reference mouse phased vcf
mm10
vcf
phasing
Beagle
3 days ago by
machoo
• 0
0
votes
3
replies
213
views
High number of detected genes per cell after doublet removal - scRNAseq data
scRNAseq
duoblet
1 day ago by
sarahmanderni
▴ 100
2
votes
2
replies
212
views
ggplot2 installation
ggplot2
updated 16 days ago by
rpolicastro
13k • written 17 days ago by
safeassli
• 0
2
votes
2
replies
210
views
A pipeline for prediction and annotation of obelisks
rna-seq
updated 1 day ago by
Pierre Lindenbaum
160k • written 1 day ago by
fred.s.kremer
▴ 110
2
votes
1
reply
208
views
Disease Prevalence Database/Disease Incidence Database
prevalence
updated 7 days ago by
Ram
43k • written 7 days ago by
Shicheng Guo
★ 9.4k
351 results • Page
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Comment: Low number of both surviving reads after trimming
by
Jay
• 0
Thank you for your response. There was no particular reason of `LEADING:20 and TRAILING:20`, but I used the same parameters as I had used …
Comment: Low number of both surviving reads after trimming
by
GenoMax
140k
A significant fraction of your reads appear to have the nextera sequence, that combined to this directive `LEADING:20` (do you have a reaso…
Comment: Low number of both surviving reads after trimming
by
Jay
• 0
Here is my fastqc, especially adapter content graph, before trimming(R1 and R2): ![enter image description here][1] And this after trimm…
Comment: Low number of both surviving reads after trimming
by
Jay
• 0
Thanks, I modified.
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160k
11 years ago: https://www.biostars.org/p/7126/
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★ 1.7k
haha yes exactly! After the first or second ruined fasta, I started "catting" all fasta files and piping to other commands, just to reduce …
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Istvan Albert
100k
... ha, beat me to it, posted at the same time ... this error rules them all .. here is a cool trick on how to count fasta headers in file…
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I've definitely ruined some genome fasta files by running `grep ^> mygenome.fasta` instead of `grep "^>" mygenome.fasta`
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Anyone please suggest which variant caller can be the best choice for variant calling of GBS data for polyploid plant.
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