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1,000 results • Page
3 of 20
Sort: replies
Rank
Views
Votes
Replies
2
votes
9
replies
7.6k
views
6 follow
Read MAP and PED files in PLINK
GWAS
PLINK
updated 4 months ago by
GenoMax
141k • written 6.0 years ago by
ft821525
• 0
0
votes
9
replies
1.5k
views
Chipseq analysis on repeat genes
galaxy
repeatmasker
ChIP-seq
repeat-elements
ATAC-seq
updated 7 months ago by
rfran010
▴ 900 • written 7 months ago by
pb11
▴ 10
0
votes
9
replies
903
views
fragments file generation via Sinto from CellRanger output
scATAC
alignment
scRNA
Sinto
10x
6 months ago by
ntsopoul
▴ 60
1
vote
9
replies
1.4k
views
Couldn't get a file descriptor referring to the console multiqc
multiqc
updated 11 months ago by
Ram
43k • written 22 months ago by
smithkthedale
▴ 10
1
vote
9
replies
858
views
Python3 or Ubuntu, not perl: Have Primers with Degenerate Bases, Need tool or way to List all Possible Nucleotide Sequences
degenerate-bases
python
primers
biopython
updated 6 weeks ago by
Dave Carlson
★ 1.7k • written 6 weeks ago by
Matthew
• 0
1
vote
9
replies
615
views
Approach for multi species comparative transcriptomics and differential expression analyses
DE
RNA-seq
transcriptomics
updated 3 months ago by
dthorbur
★ 1.9k • written 3 months ago by
fish_enthusiast
• 0
0
votes
9
replies
1.4k
views
Samtools sam to bam error
samtools
updated 5 months ago by
Andrea
• 0 • written 2.0 years ago by
kb_93
▴ 10
0
votes
9
replies
1.1k
views
grep multiple lines form file
shell-script
grep
updated 10 months ago by
Ram
43k • written 3.9 years ago by
harry
▴ 30
1
vote
9
replies
1.5k
views
blast retrieves "N/A" for taxonomic data
blast
blastn
updated 6 weeks ago by
flavianegrete
• 0 • written 3.4 years ago by
langziv
▴ 50
3
votes
9
replies
1.7k
views
How to get negative training set if I don't know what constitutes negative?
machine-learning
dna-sequence
blast
updated 5 months ago by
Ram
43k • written 7.6 years ago by
nafizh
• 0
1
vote
9
replies
1.0k
views
gene annotation
gtf
gene-annotation
updated 11 months ago by
Ram
43k • written 11 months ago by
ahmad
• 0
2
votes
9
replies
831
views
TCGA2STAT Error: Firehose connection
FIREHOSE
TCGA
updated 3 days ago by
LauferVA
4.2k • written 6 months ago by
Gnana
• 0
0
votes
9
replies
586
views
99.9999% of Q30 bases is normal?
RNA-seq
fastp
updated 15 days ago by
LauferVA
4.2k • written 16 days ago by
Aki
▴ 10
0
votes
9
replies
1.2k
views
Normalization across different single cell RNAseq experimetns
global-scaling
single-cell
scRNA-seq
batch-effect
updated 10 days ago by
Ram
43k • written 3.9 years ago by
jmah
▴ 20
1
vote
9
replies
521
views
miRNA alignment with Bowtie2
bowtie2
6 weeks ago by
Chironex
▴ 40
0
votes
9
replies
981
views
gene id
gene-id
NCBI
updated 10 months ago by
GenoMax
141k • written 10 months ago by
safeassli
• 0
1
vote
9
replies
1.2k
views
Trying to edit VCF file
VCF
R
bcftools
snpsaurus
updated 10 months ago by
Ram
43k • written 10 months ago by
peavy
• 0
0
votes
9
replies
773
views
how to use multiple command in one line with using the output of last command to the next
bedtools
linux
bed
4 months ago by
sata72
• 0
0
votes
9
replies
1.7k
views
WCGNA to Cytoscape
wgcna
cytoscape
rna-seq
updated 11 weeks ago by
Ram
43k • written 3.7 years ago by
ovariohisterectomia
▴ 40
4
votes
9
replies
1.2k
views
Snakemake issue with wrappers
Python
Snakemake
5 months ago by
Begonia_pavonina
▴ 150
1
vote
9
replies
879
views
Command line or python RNA-seq read simulator
simulation
RNA-seq
5 months ago by
i.sudbery
19k
4
votes
9
replies
1.0k
views
bcl2fastq troubleshooting all reads dumped to "Undetermined"
demultiplex
illumina
sequencing
updated 4 months ago by
GenoMax
141k • written 4 months ago by
MaxF
▴ 120
2
votes
9
replies
1.2k
views
Salmon (or other pseudo-mappers) for multi-species RNAseq read filtering
STAR
Salmon
mapper
aligner
RNAseq
4 months ago by
ian.will
▴ 30
2
votes
9
replies
1.1k
views
Read length for single -ended RNA seq data analysis
read-length
fastq
updated 9 months ago by
Ram
43k • written 9 months ago by
vinaya
• 0
3
votes
9
replies
672
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
1
vote
9
replies
3.3k
views
build databses for genome using snpEff
annotation
SNP
snpEff
updated 8 months ago by
nehakhilwani18
• 0 • written 5.7 years ago by
StudentBio
• 0
1
vote
9
replies
4.4k
views
Unable to install bioconda and bowtie
bioconda
conda
updated 4 months ago by
rpolicastro
13k • written 19 months ago by
n.anuragsharma
▴ 30
6
votes
9
replies
2.9k
views
How to analyze the scRNA seq Fastq files from NCBI
SRAtool
Cellranger
NCBI
updated 10 months ago by
Ram
43k • written 2.3 years ago by
aimanbarki
▴ 20
0
votes
8
replies
1.5k
views
VCF samtools
vcf
samtools
variant-calling
updated 10 months ago by
Ram
43k • written 2.4 years ago by
Lucía
• 0
0
votes
8
replies
644
views
Phobius error: Could not read provided fasta sequence at phobius.pl line 408
Phobius
updated 8 weeks ago by
ido.idobar
▴ 10 • written 3 months ago by
Elizabeth
▴ 30
3
votes
8
replies
2.0k
views
Kallisto mapping paired end
Kallisto
mapping
updated 11 months ago by
Ram
43k • written 2.2 years ago by
Dk
▴ 20
1
vote
8
replies
821
views
DESEQ2 design in DESeqDataSetFromMatrix: cell and treatment
rna-seq
deseq2
5 months ago by
pingu77
▴ 20
0
votes
8
replies
1.1k
views
BAM header edit with a list of amplicons
samtools
BAM
updated 10 months ago by
Ram
43k • written 2.3 years ago by
ltalignani
• 0
0
votes
8
replies
9.9k
views
how to find a read by name in a bam file
next-gen-sequencing
updated 10 months ago by
Ram
43k • written 6.8 years ago by
himanimalhotra89
• 0
5
votes
8
replies
2.4k
views
SV calling using giraffe/vg
vg
Giraffe
calling
structural
variant
updated 9 months ago by
Jordan M Eizenga
▴ 460 • written 15 months ago by
TN
• 0
7
votes
8
replies
9.0k
views
Determining read count
trimmomatic
rna-seq
trinity
updated 8 months ago by
Ram
43k • written 8.0 years ago by
nikelle.petrillo
▴ 110
1
vote
8
replies
971
views
Reads in IGV are mostly in intron regions
Patchseq
RNA-seq
10 months ago by
Kai_Qi
▴ 130
5
votes
8
replies
1.9k
views
looking for tools to detect RNA contamination in DNA
RNA-Seq
DNA-Seq
contamination
QC
updated 6 months ago by
Jingjingzhang
• 0 • written 3.7 years ago by
from the mountains
▴ 230
1
vote
8
replies
2.5k
views
Using NCBIs EDirect to download pubmed abstract
edirect
pubmed
NCBI
updated 10 months ago by
Ram
43k • written 5.8 years ago by
zorn21g
• 0
0
votes
8
replies
324
views
Error in cnetplot enrichplot package
R
updated 4 days ago by
Ram
43k • written 4 days ago by
Farhad
• 0
3
votes
8
replies
905
views
Can these RNAseq runs be combined?
transcriptomics
replicates
RNAseq
updated 10 months ago by
GenoMax
141k • written 10 months ago by
mdrnao
• 0
0
votes
8
replies
1.0k
views
The inchworm process failed. Trinity running error.
inchworm
transcriptome
trinity
updated 10 months ago by
GenoMax
141k • written 11 months ago by
Marta
• 0
1
vote
8
replies
1.1k
views
Shannon's Entropy by Sliding Window in R
Sequence
Window
R
Entropy
Sliding
updated 10 months ago by
rohitsatyam102
▴ 850 • written 17 months ago by
Alex
• 0
0
votes
8
replies
2.4k
views
Cannot process all the reads in a fast5 file?
metagenome
nanopore
basecalling
fastq
6 months ago by
Gio
• 0
1
vote
8
replies
2.5k
views
subset data problem
R
seurat
8 months ago by
Andy
▴ 120
4
votes
8
replies
608
views
GCP Snakemake
snakemake
GCP
updated 3 months ago by
Ram
43k • written 3 months ago by
Fadwa
▴ 10
5
votes
8
replies
1.9k
views
snpeff install error
snpeff
updated 11 months ago by
Ram
43k • written 12 months ago by
bestone
▴ 30
5
votes
8
replies
1.0k
views
sc-RNA seq pipeline
scRNA-seq
NGS
RNA-Seq
3 months ago by
subhiksha
▴ 30
4
votes
8
replies
1.8k
views
Error while running nf-core/rnaseq pipeline
nf-core
RNA-seq
11 months ago by
eesha28112001
• 0
7
votes
8
replies
4.2k
views
DEseq2 design matrix with 3 factors
RNA-seq
deseq2
updated 10 months ago by
Ram
43k • written 3.9 years ago by
kand3e
▴ 60
1,000 results • Page
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features <- SelectIntegrationFeatures(object.list = merged_dat) data.anchors <- FindIntegrationAnchors(object.list = merged_dat, …
Comment: gvcf joint calling
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• 0
Thank you for your help! I really appreciate it! And you know, the merged WES gVCF files still have "NA" loci. For such cases, I am quite …
Comment: Correct way to compare multiple treaments between RNA-Seq samples using edgeR?
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There is an Agilent array case study in the limma User's Guide, which you might find helpful and somewhat simpler. I don't recommend col…
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The comparison you've done seems exactly right to test whether treatment 2 modifies or enhances the effect of treatment 1. Have you exam…
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Thank you Pierre! I'll try this out with my full data set.
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Please include a link when you are recommending a tool. There can be programs with similar names.
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Check out clustergrammer from Avi Ma'ayan's lab.
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