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121,947 results • Page
148 of 2439
Sort: Rank
Rank
Views
Votes
Replies
1
vote
2
replies
871
views
genomecov -d -pc -ibam showing no coverage for every position
transcriptomics
genomecov
bedtools
rna-seq
updated 19 months ago by
ATpoint
89k • written 19 months ago by
Gabrielle
• 0
0
votes
1
reply
838
views
LOFTEE flag on GnomAD - END_TRUNC
loftee
gnomad
updated 19 months ago by
Pierre Lindenbaum
166k • written 19 months ago by
amy__
▴ 250
0
votes
2
replies
739
views
Difference in count values depends on tool and reference genome version
RNA-seq
updated 19 months ago by
Ram
45k • written 19 months ago by
shome
▴ 10
6
votes
2
replies
1.0k
views
Bayesian Differential Expression
DESeq2
edgeR
limma
bayesian
19 months ago by
thyleal
▴ 160
3
votes
2
replies
1.3k
views
Fast tool for FASTQ Q30 calculation
Q30
FASTQ
Q20
updated 19 months ago by
Ram
45k • written 19 months ago by
emma.a
▴ 130
0
votes
0
replies
541
views
ChromVAR filterPeaks error
ATAC-seq
chromVAR
filferpeaks
19 months ago by
maplewj
▴ 20
1
vote
0
replies
546
views
Deconvolution: bulk and cell signature data from different platforms or technologies
CIBERSORT
RNASeq
Microarray
deconvolution
signature
19 months ago by
zhang.jianhai
▴ 30
0
votes
2
replies
752
views
Processing FASTQ Files
viewing
FASTQ
metrics
19 months ago by
Carla
• 0
1
vote
1
reply
798
views
Cytoscape to visualize metanodes
graph
examine
cytoscape
updated 19 months ago by
xanderpico
▴ 580 • written 19 months ago by
Giovanni
▴ 10
8
votes
8
replies
1.7k
views
Can edgeR be used to find (over/under)represented sequences in fastq files?
fastq
edgeR
rnaseq
19 months ago by
AquaDeath
▴ 80
5
votes
3
replies
2.6k
views
samtools index error - "Unsorted positions on sequence" even though file is sorted
samtools
alignment
bam
updated 19 months ago by
Pierre Lindenbaum
166k • written 19 months ago by
Geoffrey
• 0
4
votes
5
replies
1.4k
views
Blastn frozen
blastn
NCBI
BLAST
remote-blast
19 months ago by
Begonia_pavonina
▴ 210
1
vote
2
replies
1.2k
views
3 questions about module membership vs gene significance
WGCNA
updated 19 months ago by
Mensur Dlakic
★ 30k • written 4.3 years ago by
demoraesdiogo2017
▴ 120
4
votes
9
replies
2.2k
views
How to accelerate BLASTING
NCBI
Blast
sequence
19 months ago by
anikcropscience
▴ 270
0
votes
5
replies
1.4k
views
AlphaFold2 Colab
AlphaFold
updated 19 months ago by
Ram
45k • written 19 months ago by
Preeti
• 0
1
vote
3
replies
2.6k
views
Trying to work with the NCBI's Entrez api using python.
biopython
python
NCBI
updated 19 months ago by
ninastanisic4
• 0 • written 21 months ago by
gdizzle12
• 0
0
votes
2
replies
940
views
Deep Sequencing vs Shallow Sequencing but repeated several times
Transcriptomics
STAR
RNASeq
updated 19 months ago by
dthorbur
★ 3.1k • written 19 months ago by
andrebolerbarros
• 0
1
vote
1
reply
688
views
Heteroscedasticity in RNA-seq data
RNA-seq
Statistics
updated 19 months ago by
i.sudbery
22k • written 19 months ago by
ToTheMoon
• 0
0
votes
1
reply
1.2k
views
phyloseq_filter_prevalence, non zero dimension
phyloseq
updated 19 months ago by
Yunliang
• 0 • written 21 months ago by
junghwachoi96
• 0
3
votes
5
replies
1.1k
views
Count table statistical analysis
count-table
statistical-analysis
updated 19 months ago by
Ram
45k • written 19 months ago by
ToTheMoon
• 0
0
votes
1
reply
565
views
Cytoscape for set-oriented Analysis of different species
graph
examine
cytoscape
updated 19 months ago by
xanderpico
▴ 580 • written 19 months ago by
Giovanni
▴ 10
0
votes
3
replies
1.1k
views
Problem with SUPPA2 Psi calculation
Alternative-splicing
SUPPA2
updated 19 months ago by
Ram
45k • written 19 months ago by
achanda
• 0
0
votes
0
replies
450
views
sequencing results of CRISPR base edit
CRISPR
chromatogram
updated 19 months ago by
Ram
45k • written 19 months ago by
hmiller
• 0
2
votes
1
reply
1.2k
views
question on how differential expression is affected if there is differential abundance between celltypes
differential-abundance
scRNA-seq
Differential-expression
updated 19 months ago by
i.sudbery
22k • written 19 months ago by
lordoftheflower
▴ 10
1
vote
1
reply
767
views
Pseudo bulking of scATAC-seq
scATAC-seq
SIgnac
updated 19 months ago by
jared.andrews07
★ 19k • written 19 months ago by
Manhezz
• 0
0
votes
1
reply
659
views
what is the best database for fusion genes ?
RNA-seq
fusion-genes
updated 19 months ago by
Yogi
▴ 70 • written 19 months ago by
Lila M
★ 1.3k
0
votes
1
reply
585
views
how to extract alignment concordantly exact 1 time from bowtie2 output
bowtie2
updated 19 months ago by
GenoMax
154k • written 19 months ago by
Wasim
• 0
0
votes
0
replies
525
views
bcftools Haploid variant calling
bcftools
19 months ago by
Wasim
• 0
0
votes
0
replies
852
views
TSS Enrichment error in Signac
Signac
scRNA-ATAC
ensdb
19 months ago by
kousi31
▴ 100
0
votes
14
replies
1.9k
views
frma normalization
affybatch
frma
mcp-counter
19 months ago by
michelafrancesconi9
▴ 20
0
votes
2
replies
696
views
Snakemake Wildcard Issue: Trouble Passing Config Field to Rule Input
Python
Snakemake
19 months ago by
blackadder
▴ 30
0
votes
3
replies
1.0k
views
Can you suggest tools or script to get canonical sequences from a cds fasta file?
genome
cds
fasta
updated 19 months ago by
Ram
45k • written 19 months ago by
Yuto
• 0
3
votes
2
replies
961
views
Linux dependencies in Docker file
linux
docker
updated 19 months ago by
ATpoint
89k • written 19 months ago by
mrashad
▴ 80
4
votes
3
replies
887
views
Getting less DE genes when incorporating all samples
RNA-seq
differential-expression
deseq2
updated 19 months ago by
jv
★ 1.9k • written 19 months ago by
shome
▴ 10
0
votes
0
replies
380
views
miseq double band
adapter
index
double-band
pcr
miseq
19 months ago by
junghwachoi96
• 0
7
votes
12
replies
2.1k
views
ensembl - selecting SNPs of specific genes
SNP
VCF
ensembl
gene
genome
19 months ago by
Eliza
▴ 30
1
vote
0
replies
495
views
Alternatives to mirBase for mirDeep2 Input
mirBase
RNAcentral
ferret
RNAseq
mirDeep2
19 months ago by
Jack
▴ 10
5
votes
7
replies
3.3k
views
Blast NCBI online using R
R
NCBI
BLAST
Rstudio
18 months ago by
Begonia_pavonina
▴ 210
10
votes
10
replies
12k
views
9 follow
Free Virtual Ligand Screening Software
drug
software
written 13.8 years ago by
Wayne
★ 1.0k
1
vote
1
reply
590
views
1000 genome project specific genes selection
gwas
1000genomes
updated 19 months ago by
Ram
45k • written 19 months ago by
Eliza
▴ 30
2
votes
1
reply
1.6k
views
How to solve unloadNamespace(package) : namespace in R
R
updated 19 months ago by
Ram
45k • written 19 months ago by
kousi31
▴ 100
0
votes
6
replies
1.5k
views
vcftools warnings worrisome?
vcftools
updated 19 months ago by
Ram
45k • written 19 months ago by
8armed
▴ 20
0
votes
0
replies
429
views
Tool:
Annotating the epitope-specificity of TCRs with bioinformatics
Annotation
TCR
Epitope-specificity
19 months ago by
tim
• 0
0
votes
0
replies
845
views
Deviance for feature selection in Seurat
feature-selection
Seurat
19 months ago by
Immreg
▴ 10
0
votes
0
replies
386
views
Discovery of reads originating from the chloroplast with multiple congeners' reference
non-model-species
mapping
congener
chloroplast
updated 19 months ago by
Ram
45k • written 19 months ago by
Plant_man_217
• 0
0
votes
2
replies
735
views
attempting to download eQTL data from eQTL catalog, but code not retrieving file
GWAS
eQTL
Genomics
19 months ago by
Orlando
• 0
0
votes
4
replies
854
views
Differential methylation in gene
Differential-Methylation
19 months ago by
Mamatha Y S
• 0
2
votes
7
replies
1.3k
views
Extract SNPs present in mutants
snp
vcftools
vcf
bcftools
updated 19 months ago by
Pierre Lindenbaum
166k • written 19 months ago by
pablo
▴ 350
0
votes
1
reply
3.4k
views
Impact of k-mer length for kraken2 database
sequence
updated 19 months ago by
Dave
• 0 • written 6.4 years ago by
josmos43
• 0
2
votes
4
replies
2.6k
views
Bacterial genome assembly, best uses of reads at excessively high sequencing depth?
bacteria
pacbiohifi
assembly
coverage
genome
19 months ago by
ian.will
▴ 30
121,947 results • Page
148 of 2439
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Answer: conda create PackagesNotFoundError
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
Answer: conda create PackagesNotFoundError
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Yes, I'm using SSH session
Comment: Tools to simulate Illumina short read sequences and ONT long reads with a refere
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I think only a fraction of sequencing errors can be specified. If a mix of a reference and a mutated genome is included, setting sequencing…
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Cannot reproduce. Is this run via some sort of server/HPC/scheduler/something?
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Do you know if ART is able to generate known mutations.
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154k
> which will also give me list of the variants Do either of these packages satisfy the requirement of generating known mutations?
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Please include target species you are working on. These availability of these kinds of resources will be quite variable depending on how es…
Comment: Functional prediction for proteins of bacteria.
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Can you be more specific about what kind of changes you are interested in? For example, are the biochemical changes or structural changes p…
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
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8.0k
The best one I've used for ONT reads so far is badread - https://github.com/rrwick/Badread For illumina I've used and like insilicoseq - h…
Answer: Tools to simulate Illumina short read sequences and ONT long reads with a refere
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Mensur Dlakic
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You may want to consider one of these packages: - https://www.niehs.nih.gov/research/resources/software/biostatistics/art - https://git…
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You should explicitly name the channels from which the packages are to be installed, as the error suggests (`PackagesNotFoundError: The fol…
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> I generated a genome assembly and wanted to check for contaminant sequences Why do you think you have contaminant sequences in your asse…
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Thank you so much for your input!!!!
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