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Limit : this year
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1,000 results • Page
4 of 20
Sort: Votes
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Views
Votes
Replies
4
votes
7
replies
809
views
Help with weighted nearest neighbor analysis
seurat
single-cell
8 months ago by
Chris
▴ 260
4
votes
1
reply
574
views
How to Load a Molecular Signature Database into clusterProfiler gseGO?
ClusterProfiler
RNA-seq
GSEA
updated 9 months ago by
Nitin Narwade
★ 1.6k • written 9 months ago by
Manuel Sokolov Ravasqueira
▴ 100
4
votes
3
replies
607
views
Over Representation analysis altered pathways in common between comparisons plot
R
Visualization
DGE
ORA
updated 6 months ago by
Basti
★ 2.0k • written 6 months ago by
Manuel
▴ 10
4
votes
9
replies
1.0k
views
bcl2fastq troubleshooting all reads dumped to "Undetermined"
demultiplex
illumina
sequencing
updated 4 months ago by
GenoMax
142k • written 4 months ago by
MaxF
▴ 120
4
votes
5
replies
1.2k
views
STAR mapping - regarding output files content
STAR
RNA-seq
mapping
updated 8 months ago by
rfran010
▴ 900 • written 8 months ago by
Manko47
• 0
4
votes
9
replies
1.2k
views
Snakemake issue with wrappers
Python
Snakemake
5 months ago by
Begonia_pavonina
▴ 150
4
votes
3
replies
709
views
How to interpret output of PLINK association test (--assoc)
assoc
updated 8 months ago by
zx8754
11k • written 8 months ago by
karthivalarmathi99
▴ 10
4
votes
16
replies
1.8k
views
How to subset large BAM files specifically/ extract specific subsets?
bamtools
RNAseq
samtools
BAM
updated 10 weeks ago by
Ram
43k • written 7 months ago by
ella
• 0
4
votes
4
replies
657
views
Feedback on mouse brain scRNA-seq quality control
mouse
brain
singe-cell
scRNAseq
quality-control
8 months ago by
nshenoy
▴ 50
4
votes
5
replies
2.4k
views
Merge CNVnator output of multiple samples
CNV
WGS
updated 10 months ago by
Ram
43k • written 6.7 years ago by
zhang248
▴ 40
4
votes
6
replies
815
views
how to plot SV(structural variants) from many assemblies of a given locus
SV
11 months ago by
natalev
▴ 20
4
votes
5
replies
395
views
Filter out miRNA from ncRNA dataset
bowtie
bowtie2
miRNA
filtering
ncRNA
updated 10 weeks ago by
ATpoint
82k • written 10 weeks ago by
binaryCode
▴ 10
4
votes
6
replies
1.2k
views
Transcript quantification
rna-seq
transcriptome
SRA
updated 10 months ago by
ATpoint
82k • written 10 months ago by
firefox91
• 0
4
votes
4
replies
375
views
Average expression of a sample in single-cell data
single-cell
rna-seq
4 weeks ago by
newuser2024
• 0
4
votes
2
replies
247
views
Trying to write bwa mem -> samtools view -> samtools sort loop
bwa
samtools
mapping
genome
updated 29 days ago by
Pierre Lindenbaum
161k • written 29 days ago by
Lee
• 0
4
votes
9
replies
596
views
variant calling
variant-calling
updated 4 weeks ago by
Ram
43k • written 4 weeks ago by
dalibenam64
• 0
4
votes
7
replies
2.7k
views
low bootstrap value?
phylogeny
genome
alignment
updated 11 months ago by
Ram
43k • written 4.9 years ago by
Kumar
▴ 120
4
votes
6
replies
646
views
Unexpected separation of RNA-seq samples on PCA plot
depletion
PCA
rRNA
plot
RNA-seq
5 months ago by
Tihana
▴ 10
4
votes
7
replies
589
views
DESeq2 Multifactor Design
RNA-seq
DESeq2
updated 20 days ago by
Ram
43k • written 21 days ago by
AHerik
▴ 20
4
votes
3
replies
321
views
Should you remove PCR duplicates for kmer counting?
kmer
dedup
duplicates
updated 12 weeks ago by
Darked89
4.6k • written 12 weeks ago by
ebaldwin
▴ 30
4
votes
7
replies
1.5k
views
.bed files from sequencing platform not containing intervals of "alt", "random" haplotypes. How do I perform coverage and haplotype caller?
exome
.bed
haplotypes
HG38
coverage
updated 9 months ago by
GenoMax
142k • written 9 months ago by
LeandroF.
• 0
4
votes
6
replies
1.0k
views
Python script to automatically read in, name output files & parse R1 & R2 fastq.gz files when given an input directory with raw data files
python
fastq
9 months ago by
eorr
▴ 30
4
votes
6
replies
2.4k
views
Why weblogo of biopython doesn't work?
Biopython
Weblogo
updated 11 months ago by
minakshiboruahassam
• 0 • written 20 months ago by
Plus
▴ 20
4
votes
3
replies
399
views
Single cell analysis of Cancer
cancer
single-cell
RNA-seq
updated 11 weeks ago by
GenoMax
142k • written 11 weeks ago by
moustafa_abohawya
▴ 20
3
votes
5
replies
924
views
Ensembl site unresponsive in clusterProfiler analyses
parallell
clusterProfiler
R
updated 8 months ago by
manaswwm
▴ 510 • written 8 months ago by
enanoide
• 0
3
votes
16
replies
12k
views
combining z-scores into a single z-score value
excel
R
statistics
updated 11 months ago by
Ram
43k • written 5.1 years ago by
Star
▴ 60
3
votes
4
replies
1.5k
views
fastPHASE -F provided to estimate haplotype frequencies, but no freqs in output
genomics
phasing
fastPHASE
updated 11 months ago by
Ram
43k • written 6.1 years ago by
lakemonster
▴ 10
3
votes
7
replies
496
views
Snakemake rule that runs an assessment for once after completing other previous rules
snakemake
8 weeks ago by
Fadlilah
▴ 10
3
votes
3
replies
342
views
learning bioinformatics
course
learning
updated 3 months ago by
Ram
43k • written 3 months ago by
sevda
• 0
3
votes
16
replies
1.5k
views
How to bring all reads to the same length? Any tool?
Read-length
Bed
updated 10 months ago by
Ram
43k • written 4.3 years ago by
Ankit
▴ 500
3
votes
12
replies
971
views
why 99% reads failed to align in mir-seq analysis?
Fastqc
bowtie1
miRNA-seq
alignment
differential-expression-analysis
3 months ago by
mohammadhassanj
▴ 260
3
votes
9
replies
691
views
STARsolo seg fault without readMapNumber flag
STAR
RNA-seq
STARsolo
Velocyto
updated 6 months ago by
Ram
43k • written 6 months ago by
rbronste
▴ 420
3
votes
3
replies
804
views
When counting ASVs in DADA2, does a hit/count only occur at 100% alignment percent identity?
metagenomics
qiime2
amplicon
16s
dada2
updated 8 months ago by
andres.firrincieli
3.6k • written 8 months ago by
O.rka
▴ 710
3
votes
3
replies
746
views
[bwa_aln_core] calculate SA coordinate... script.sh: line 91: 183402 Killed
HPC
BWA
Alignment
updated 11 months ago by
Ram
43k • written 2.3 years ago by
qstefano
▴ 20
3
votes
6
replies
2.1k
views
Biopython TimeExceptionError how to handle?
biopython
entrez
updated 11 months ago by
Ram
43k • written 6.5 years ago by
Xylanaser
▴ 80
3
votes
4
replies
3.5k
views
any recommended tools for batch effect and normalization not written in R?
R
RNA-Seq
combat
python
batch-effect
updated 15 days ago by
Ram
43k • written 7.1 years ago by
dyollluap
▴ 310
3
votes
1
reply
395
views
FastQC duplicates questions
FastQC
RNA-seq
8 months ago by
Beth
▴ 10
3
votes
4
replies
391
views
What can cause broken read-pairs (chimeric read-pairs) in a sequencing run?
QC
12 weeks ago by
William
★ 5.3k
3
votes
1
reply
553
views
chromosome location to gene name and aa change
variant-annotation
11 months ago by
Zi
• 0
3
votes
1
reply
525
views
Are there pipelines to analyze the Quality Controls for ATAC-seq and ChIP-seq data?
ChIP-seq
ATAC-seq
updated 9 months ago by
Papyrus
★ 2.9k • written 9 months ago by
Dan
▴ 180
3
votes
5
replies
1.5k
views
Trouble with best practices
samtools
WES
NGS
GATK
updated 11 months ago by
Ram
43k • written 6.2 years ago by
erarroji
• 0
3
votes
5
replies
1.1k
views
kraken2 bacteria database 250GB+
metagenomics
16s
kraken2
kraken
updated 5 months ago by
GenoMax
142k • written 5 months ago by
10mz1
▴ 10
3
votes
6
replies
849
views
scRNA-seq: Consistent low number of cells and low fraction reads across the samples
scRNA-seq
cells
mRNA
expression
gene
updated 5 months ago by
jv
★ 1.8k • written 5 months ago by
newbee
▴ 40
3
votes
4
replies
358
views
What should be used as a "baseline" in pooled CRISPR screen?
CRISPR
MAGECK
FACS
8 weeks ago by
Aleksandr
▴ 10
3
votes
5
replies
755
views
STAR error with a loop
STAR
RNA
transcriptomics
updated 11 months ago by
Ram
43k • written 17 months ago by
luzglongoria
▴ 50
3
votes
8
replies
6.5k
views
7 follow
GATK genomicsDBimport intervals for WGS
gatk
genomicsdbimport
updated 1 day ago by
Sd
• 0 • written 5.1 years ago by
Nicolas Rosewick
11k
3
votes
6
replies
1.1k
views
Very different QUAL scores on VCFs of same sample using different methods
deepvariant
clara-parabricks
haplotypecaller
vcf
10 months ago by
Victor
▴ 10
3
votes
9
replies
802
views
Understanding this analysis pipeline
reads
updated 10 months ago by
Ram
43k • written 10 months ago by
artemchuki
• 0
3
votes
2
replies
1.2k
views
DESeq2 design and Batch effects
RNA-Seq
batch-effect
DESeq2
updated 16 days ago by
Ram
43k • written 4.4 years ago by
baldissera152
▴ 10
3
votes
3
replies
596
views
How do mRNASeq, BulkRNASeq, and TotalRNASeq differ in terms of workflow?
RNA-Seq
updated 6 months ago by
Ram
43k • written 6 months ago by
manish.nu
• 0
1,000 results • Page
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A: After read mapping, count exons or genes?
After read mapping, count exons or genes?
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82k
Not sure I follow. Can you first of all describe which comparisons you want to make, pretending there was no batch effect at all. Write dow…
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This the tool still problematic?
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Thank you for the advice, i'll keep that in mind.
Comment: Segmentation error while using a tool
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I am trying to reproduce some bioinformatics data from a research paper-[this paper][1] as i was asked to work on an MRSA bioinfo project, …
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Most likely you didn't do anything wrong. Going by your previous post that you have only 8 GB of RAM, the most likely reason is the lack of…
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Hey! Can you explain the question further? What have you tried?
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Isn't the download link available above the plot: http://bis.zju.edu.cn/HCL/data/DGE/Adult-Transverse-Colon1_dge.txt.gz
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The expression levels do not change but the way that you have parametrized the expression levels does change. The two design matrices give…
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