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Limit : this year
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1,000 results • Page
3 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
1
reply
176
views
multiple condition and time course in RNA-seq
edgeR
RNA-Seq
DESeq2
updated 3 days ago by
i.sudbery
18k • written 3 days ago by
tiancaigg
▴ 30
0
votes
0
replies
119
views
Negative F statistics for sex check in plink
plink
check
sex
4 days ago by
kl
▴ 10
2
votes
4
replies
315
views
Should SMART-seq2 data be deduplicated in STAR?
SMART-seq2
3 days ago by
anlinli.napert
• 0
0
votes
3
replies
366
views
Extracting list of identical items from several excel files
from
excel
items
Extract
file
updated 4 days ago by
DonPhager
• 0 • written 4 days ago by
otieno43
▴ 20
1
vote
2
replies
253
views
Indexing by bowtie2 but aligning with STAR
STAR
mm10
Bowtie2
Alignment
Index
4 days ago by
Anojan
• 0
0
votes
1
reply
188
views
Chipseq peak calling and peak frequency region
chipseeker
macs2
updated 2 days ago by
Arup Ghosh
3.2k • written 4 days ago by
Mehwish
▴ 10
0
votes
3
replies
307
views
subset a bam file
bam
pysam
NGS
samtools
updated 4 days ago by
GenoMax
136k • written 5 days ago by
Ming
• 0
1
vote
1
reply
255
views
Forum:
want to work in open source project/project in bioinformatics
bioinformatics
project
updated 4 days ago by
Matthias Zepper
4.2k • written 4 days ago by
Afeef
• 0
0
votes
0
replies
170
views
Tutorial:
Making Tile plots to show Synonymous Non-Synonymous mutation fraction
mutation
ggplotify
geom_tile
ggplot2
5 days ago by
rohitsatyam102
▴ 780
0
votes
1
reply
241
views
issue in RNA -seq analysis
NGS
RNA-Seq
updated 5 days ago by
GenoMax
136k • written 5 days ago by
subhiksha
• 0
2
votes
3
replies
998
views
How to identify the 300 kb upstream and downstream genes of lncRNAs?
RNA-Seq
lncRNA
target genes
upstream
downstream
updated 5 days ago by
SeguraChain
• 0 • written 3.0 years ago by
mathavanbioinfo
▴ 70
4
votes
6
replies
537
views
BLAST hits on viruses relate to different host than used
Phage
BLAST
Metagenomics
4 days ago by
DonPhager
• 0
0
votes
3
replies
337
views
Alternatives to Music2 for rnaseq deconvolution without disease scRNA dataset
scRNA
deconvolution
Music
Music2
bulk
updated 5 days ago by
ATpoint
78k • written 5 days ago by
manuelmourato25
• 0
1
vote
4
replies
413
views
SNPs of a specific mouse strain
snp
updated 4 days ago by
Matthias Zepper
4.2k • written 6 days ago by
darklings
▴ 560
0
votes
0
replies
225
views
The number of variations in the pan-genome is reduced compared to the variations in the input VCF file
vg
5 days ago by
Wenke
• 0
0
votes
3
replies
299
views
Annovar - Annotated file cells show string
annovar
5 days ago by
Roshan
• 0
2
votes
6
replies
463
views
Genotypes in vcf files
genotypes
vcf
updated 5 days ago by
Jeremy Leipzig
22k • written 5 days ago by
amy__
▴ 160
1
vote
1
reply
209
views
Genetic data QC prior to imputation
imputation
updated 5 days ago by
Raony Guimarães
★ 1.3k • written 5 days ago by
kl
▴ 10
4
votes
2
replies
268
views
Excel Pasting Question
Excel
updated 5 days ago by
Pierre Lindenbaum
158k • written 5 days ago by
Bweil2
▴ 10
0
votes
1
reply
239
views
MinKNOW software installation doubt for MinION Nanopore sequencing
MinKNOW
MinION
Nanopore
updated 5 days ago by
GenoMax
136k • written 5 days ago by
Soumajit
▴ 40
0
votes
1
reply
208
views
htShinyExample-5.3 - not working
htShiny
Oncoprint
InteractiveComplexHeatmap
updated 12 hours ago by
Ram
41k • written 6 days ago by
bioinfo
▴ 60
6
votes
5
replies
3.1k
views
Multi threading bowtie index
bowtie
indexing
updated 5 days ago by
colindaven
5.7k • written 8.2 years ago by
ChillarAnand
▴ 70
2
votes
4
replies
354
views
Human mitochondrial reference genome
reference
genome
mitochondria
1 day ago by
singhankit973
• 0
0
votes
0
replies
156
views
Seeking Advice on WGCNA for Nematode Sexual Dimorphism
WGCNA
Worms
RNA-Seq
6 days ago by
kdca
• 0
0
votes
3
replies
269
views
labelling the clusters from the CD4 T cell scRNAseq data
scRNAseq
6 days ago by
Sara
▴ 230
0
votes
0
replies
876
views
Any tools for finding the telomere sequences / lengths directly for nanopore sequencing reads without any prior knowledge of the organism
genomics
telomeres
reads
6 days ago by
Mark
• 0
1
vote
3
replies
1.1k
views
DoubletFinder for Python?
scanpy
doublets
scrublet
updated 6 days ago by
fracarb8
★ 1.3k • written 10 months ago by
aerlaut
▴ 10
0
votes
0
replies
153
views
not best k value found
de
assemblly
assembly
novo
kmergenie
6 days ago by
shaileshdesai76
• 0
7
votes
5
replies
1.4k
views
How to learn Scanpy
scanpy
Python
rna-seq
updated 6 days ago by
Prakki Rama
★ 2.7k • written 17 months ago by
godwin
▴ 30
4
votes
4
replies
475
views
Is there a good software to generate test genomics data?
genomics
testing
benchmarking
updated 5 days ago by
Brian Bushnell
19k • written 8 days ago by
Mark
• 0
3
votes
4
replies
364
views
selection of reference genome
hg19
reference
genome
hg38
5 days ago by
Tsin-Lau
• 0
1
vote
4
replies
597
views
Forum:
Current Trends in Bioinformatics
structural-bioinformatics
updated 6 days ago by
ATpoint
78k • written 22 days ago by
Paulo
• 0
1
vote
1
reply
296
views
After merging batches, I got very segmented umap in scanpy
scanpy
single-cell
6 days ago by
MohammadAlkadi
▴ 70
0
votes
0
replies
164
views
Multi-mapped reads in Ribo-Seq data, discard or keep?
STAR
ribo-seq
multi-mapped
rna-seq
TE
6 days ago by
Carmen
• 0
0
votes
0
replies
168
views
Identifying differentially expressed loci for gene duplicates using DESeq2
rna-seq
deseq2
6 days ago by
pl23
• 0
2
votes
12
replies
846
views
BCL2FASTQ: Segmentation Fault Error (segfault)
linux
Segmentation-fault
bcl2fastq
6 days ago by
gillhuberfelix
▴ 20
5
votes
5
replies
6.1k
views
6 follow
Mitochondrial genes in single cell nuclear RNAseq data
RNA-Seq
gene
mitochondria
updated 6 days ago by
Prakki Rama
★ 2.7k • written 4.9 years ago by
dalhoomist
▴ 40
0
votes
2
replies
277
views
Find Genes in Homer Analysis that have the enriched Motif
single
ORA
nucleus
mRNA
Homer
2 days ago by
je71xusa
• 0
0
votes
2
replies
267
views
Tool to get genes in the neighbourhood of a particular gene
locus
Gene
updated 6 days ago by
Raony Guimarães
★ 1.3k • written 6 days ago by
ThePlaintiff
▴ 80
0
votes
0
replies
172
views
News:
GWAS course
R
Bioinformatics
GWAS
6 days ago by
carlopecoraro2
★ 2.4k
2
votes
3
replies
376
views
Salmon index problem
Salmon
docker
RNAseq
index
refgenie
updated 5 days ago by
Raony Guimarães
★ 1.3k • written 7 days ago by
enee
▴ 10
9
votes
4
replies
2.1k
views
Tool:
SEDA (SEquence DAtaset builder): a desktop tool for processing FASTA files containing DNA and protein sequences
fasta
sequences
java
6 days ago by
Hugo
▴ 380
2
votes
3
replies
335
views
BWA mem align reads with MQ = 0 to only one region (reference genome has two similar sequences).
NGS
BWA
updated 6 days ago by
Raony Guimarães
★ 1.3k • written 6 days ago by
captainlabman
▴ 10
2
votes
2
replies
312
views
Merging several vcf files for GWAS?
R
beginner
gwas
ngs
novogene
6 days ago by
sabrilo171
▴ 10
7
votes
5
replies
316
views
bcftools error: : error while loading shared libraries: libcrypto.so.1.0.0:
bcftools
6 days ago by
jiyoung
▴ 20
2
votes
9
replies
637
views
Salmon (or other pseudo-mappers) for multi-species RNAseq read filtering
STAR
Salmon
mapper
aligner
RNAseq
15 hours ago by
ian.will
▴ 10
2
votes
2
replies
475
views
Help with scvelo
scvelo
updated 7 days ago by
Prakki Rama
★ 2.7k • written 6 weeks ago by
Chris
▴ 230
5
votes
2
replies
242
views
RNA Contamination Tool for Developing Cell Samples
contamination
scRNA
quality
RNA
SoupX
5 days ago by
Rafael Soler
★ 1.2k
1
vote
9
replies
2.7k
views
PCAtools data file not linking to metadata file
R
PCA
RNA-Seq
PCAtools
updated 7 days ago by
ATpoint
78k • written 3.4 years ago by
bryce.plu
▴ 10
1
vote
0
replies
214
views
Job:
Fully funded PhD positions, Vienna, Austria
fully-funded
phd
updated 7 days ago by
colindaven
5.7k • written 7 days ago by
facultyrecruiting.ista
▴ 10
1,000 results • Page
3 of 20
Recent Votes
Comment: How can I amend the output of a DIAMOND python script?
Comment: scRNA-seq: Consistent low number of cells and low fraction reads across the samp
A: How to add biological annotations using R
Answer: Mapping quality in `vg giraffe`
Answer: Mapping quality in `vg giraffe`
Answer: Comparing 3 Data Sets using DeSeq and Heatmaps
Comment: Harmony integration PC variance explained
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Recent Replies
Comment: Can you help me to download list of miRNA from a SRA under a bioproject ?
by
ATpoint
78k
I it was available then you would see entries there. Still, be aware that this is raw sequencing data, so it's not just a list of miRNAs. C…
Comment: Tools or R / Python packages to perfom ML models
by
rpolicastro
12k
R and Python have access to most ML methods, it's just a matter of learning either of the languages and then finding which libraries are po…
Comment: scRNA-seq: Consistent low number of cells and low fraction reads across the samp
by
ATpoint
78k
Seconding that. Is there anything else that you can use for QC, like some Trypan Blue stain of the cells right before loading the chip? Is …
Comment: Where is the index command?
by
Michael
53k
samtools index (like genral programs you install on your machine) should run without sudo, if it doesn't, you might want to check the acces…
Comment: Where is the index command?
by
Michael
53k
I didn't know you were using WSL. Possibly the damage you can do with that is limited to the WSL environment and the worst thing that can h…
Comment: Is bisulfite-seq data from different studies comparable with each other?
by
Basti
★ 1.8k
There is no general rule, what you can apply depends on the nature of each dataset you intend to integrate (tissue, condition, technique, s…
Comment: Where is the index command?
by
Michael
53k
Running this is always a good idea.
Answer: Salmon indices differences
by
ATpoint
78k
In theory the full genome decoy is the best since it includes the entire genome, hence decoying potential spurious mappings due to DNA cont…
Comment: Can you help me to download list of miRNA from a SRA under a bioproject ?
by
Nitin Narwade
★ 1.5k
You can directly ask authors but as it is still on bioRxiv I don't think they can share this data with you until it get published somewhere…
Comment: Can you help me to download list of miRNA from a SRA under a bioproject ?
by
abourrieau
• 0
Thank you, I had thought about this possibility but I don't see where it is indicated on the NCBI website: : https://www.ncbi.nlm.nih.gov/b…
Comment: Cellcyclescoring did not work in Seurat V5
by
fracarb8
★ 1.3k
You can try to merge the layer together with `data.filt <- JoinLayers(data.filt)`
Comment: Mapping quality in `vg giraffe`
by
Wenhai
• 0
Many thanks.
Comment: Can you help me to download list of miRNA from a SRA under a bioproject ?
by
Nitin Narwade
★ 1.5k
It seems the data for this BioProject is not publicly available yet. It is a good practice to check first on the NCBI website. Regards, N…
Comment: How to check for incorporation of plasmid DNA into human genomic DNA (ChIP-seq)
by
Nitin Narwade
★ 1.5k
Hi, Nobody has answered you yet, probably because there are very basic things you assumed wrong, so I will try to comment on this. The f…
Comment: calculate nucleotide diversity from whole-genome-sequence data for individual ge
by
KL_STKLBK
• 0
This is not really answering the question - one can loop say VCFtools, but it would still be windows/single site based. DnaSP also does not…
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