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121,919 results • Page
711 of 2439
Sort: Rank
Rank
Views
Votes
Replies
1
vote
1
reply
3.4k
views
Interpreting nucleotide diversity
nucleotide diversity
π
SNP
updated 4.6 years ago by
Biostar
20 • written 4.6 years ago by
nitinra
▴ 50
1
vote
2
replies
1.4k
views
Number of upregulated and downregulated genes from counts matrix
RNA-Seq
DEGs
up and downregulated genes
4.6 years ago by
taniamahmood38
▴ 60
3
votes
3
replies
2.4k
views
Pyranges: operate on just metadata columns
pyranges
pandas
column selection
4.6 years ago by
Bosberg
▴ 50
0
votes
0
replies
1.2k
views
Job:
Post-doc position in multi-omics of Alzheimer's disease at Columbia University in New York City
post-doc
multiomics
GWAS
R
sequencing
updated 2.3 years ago by
Ram
45k • written 4.7 years ago by
lhd
• 0
0
votes
1
reply
755
views
Bubble Plot of two different GO
Bubble Plot
Gene Ontology
4.6 years ago by
sb4158
• 0
0
votes
2
replies
1.0k
views
Chip_seq analysis remove duplicates
ChIP-Seq
4.6 years ago by
luckysardar171
▴ 20
1
vote
3
replies
1.6k
views
Suggested Trimmomatic inputs for LEADING and TAILING
RNA-Seq
sequencing
quality control
4.6 years ago by
dadrasarmin
▴ 20
1
vote
6
replies
1.5k
views
RNASeq datasets with different total counts
normalization
RNA-seq
updated 2.1 years ago by
Ram
45k • written 4.6 years ago by
felipead66
▴ 120
3
votes
4
replies
1.8k
views
Blastn max target sequences
blastn
ncbi
updated 4.6 years ago by
agata88
▴ 870 • written 4.6 years ago by
Kinoppy
• 0
1
vote
4
replies
4.7k
views
cellranger count error: No input FASTQs were found for the requested parameters.
scRNA
cellranger
4.6 years ago by
tiancaigg
▴ 30
4
votes
6
replies
1.7k
views
Forum:
What are some areas of bioinformatics that are overdone?
bioinformatics
updated 2.5 years ago by
Ram
45k • written 4.6 years ago by
Jeremy Leipzig
23k
1
vote
1
reply
1.8k
views
Read subgroup of HDF5 file with (0,0) group name?
hdf5
rhdf5
dataframe
python
pandas
updated 4.6 years ago by
Mike Smith
★ 2.1k • written 5.3 years ago by
star
▴ 350
0
votes
1
reply
1.6k
views
FASTQ level UMI correction for TCR analysis
UMI
fastq
TCR
RNA-Seq
Mixcr
4.6 years ago by
gordo2b
▴ 10
5
votes
5
replies
10k
views
how to remove duplicate SNP rows in vcf using bcftools norm
SNP
updated 4.6 years ago by
brianaloredana
▴ 30 • written 5.6 years ago by
evelyn
▴ 230
7
votes
11
replies
3.3k
views
Get top-contribution variant name for PCA result
R
4.6 years ago by
luongthang1908
▴ 50
1
vote
2
replies
782
views
miRNA seq, problems with alignment
RNA-Seq
alignment
4.6 years ago by
adrian.ramirezdearellano
• 0
0
votes
0
replies
751
views
Canu 2.1.1 Storage issue at correction/1-overlapper
Assembly
genome
4.6 years ago by
arteen.marashi
• 0
7
votes
11
replies
24k
views
11 follow
How to generate KEGG pathway classification chart
RNA-Seq
kegg
updated 2.2 years ago by
microecologist93
▴ 20 • written 6.5 years ago by
dongchenchen
▴ 30
0
votes
0
replies
1.7k
views
Basic questions about Ngsplot heatmaps
ngsplot
heatmap
4.6 years ago by
Aspire
▴ 390
0
votes
0
replies
742
views
Enrichr Diseases/Drugs Terms Explanation Help
enrichr
rare-disease
gene-list
updated 2.5 years ago by
Ram
45k • written 4.6 years ago by
Rongxin
▴ 40
2
votes
3
replies
1.8k
views
NO FDR <0.05 in the whole dataset
R
RNA-Seq
FDR
qvalue
updated 4.6 years ago by
rpolicastro
13k • written 4.6 years ago by
camillab.
▴ 160
0
votes
2
replies
668
views
Selecting Samples based on Clustering
RNA-Seq
sequencing
gene
4.6 years ago by
Hyper_Odin
▴ 320
3
votes
7
replies
1.9k
views
Has anyone heard the term data warehousing in genomics before?
data
warehouse
updated 4.6 years ago by
ahatest007
• 0 • written 6.8 years ago by
sapuizait
▴ 10
0
votes
5
replies
1.8k
views
how to debug error in RnBeads Mac mini 10.15.7 R 4.0.3
R
Rnbeads
debug
bug
illuminia
4.6 years ago by
saba_nasir111
• 0
0
votes
6
replies
1.3k
views
how to find genes whose expressions are likely affected by interaction at any time in edgeR?
edgeR
4.6 years ago by
calvin99
• 0
0
votes
7
replies
7.4k
views
Phasing vcf file with Beagle
vcf
phasing
beagle
haplotype
bash
updated 4.3 years ago by
明梓
• 0 • written 4.6 years ago by
sixthirty
• 0
1
vote
1
reply
912
views
Genomic Variant calling from RNA-Seq Data
RNA-Seq
SNP
Genomic
Variant
updated 4.6 years ago by
Kevin Blighe
89k • written 4.6 years ago by
hkarakurt
▴ 200
7
votes
18
replies
7.1k
views
problem in matching the names between file names and patients Id in TCGA
TCGA
CNV
problem in matching
updated 4.6 years ago by
HB
▴ 30 • written 7.3 years ago by
nazaninhoseinkhan
▴ 530
0
votes
3
replies
914
views
Estrogen hormonal signalling genes
RNA-Seq
4.6 years ago by
glady
▴ 320
0
votes
0
replies
581
views
How to find fixed mutations between populations
fixed mutations
4.6 years ago by
Yongjie Zhang
▴ 110
6
votes
13
replies
2.3k
views
Blast in parallel with edible outfmt
blast
output
updated 4.6 years ago by
ATpoint
89k • written 4.6 years ago by
K.Gee
▴ 40
2
votes
8
replies
2.1k
views
HDF5-DIAG: Error in using dsk
GATB
updated 4.6 years ago by
claire.lemaitre
▴ 120 • written 4.6 years ago by
manozawa439
• 0
2
votes
4
replies
1.5k
views
Two Sample t-test with bootstrapping for gene expression matrix in R
RNA-Seq
R
updated 4.6 years ago by
e.rempel
★ 1.1k • written 4.6 years ago by
Expert
▴ 10
1
vote
1
reply
992
views
Does transcriptome assembly data contains introns?
Transcriptome
RNA-Seq
Stringtie
Hisat2
Assembly
updated 4.6 years ago by
lieven.sterck
15k • written 4.6 years ago by
noorussubah95
▴ 20
0
votes
0
replies
812
views
Tools for structural variant on exome
exome
sequencing
SV
structural variant
4.6 years ago by
quentin54520
▴ 120
1
vote
1
reply
3.2k
views
Samtools Mpileup Doesn'T Show Deletion, When Deletion Between Paddings
samtools
mpileup
bam
ngs
updated 4.6 years ago by
aroob.lab
• 0 • written 12.5 years ago by
tsk
▴ 10
8
votes
22
replies
16k
views
Creating reference Index using Bowtie2
genome
alignment
next-gen
Assembly
updated 3.9 years ago by
Ram
45k • written 11.2 years ago by
cvu
▴ 180
2
votes
6
replies
1.6k
views
change the header of fasta sequence
fasta
name
written 4.6 years ago by
harry
▴ 40
0
votes
0
replies
569
views
Are there any databases for gene co-expression or gene clustering by spatial/cell-type patterns?
rna-seq
gene
4.6 years ago by
Yep
▴ 20
0
votes
0
replies
667
views
Probability of rare variants
variants
statistics
probability
4.6 years ago by
Genomics
▴ 20
1
vote
0
replies
609
views
Multifactor analysis in DESeq2
RNA-Seq
4.6 years ago by
a.basitkhan1990
▴ 60
0
votes
2
replies
1.2k
views
Stacks 1.44 Error
RAD-Seq
ddRAD
Stacks
updated 4.6 years ago by
h.mon
35k • written 4.6 years ago by
virtualinterlect
• 0
5
votes
4
replies
6.3k
views
How to download multiple fasta files from NCBI in linux command line?
fasta
linux
command line
NCBI
updated 4.6 years ago by
Mensur Dlakic
★ 30k • written 4.6 years ago by
Anisur Rahman
▴ 80
2
votes
18
replies
3.7k
views
Uploaded bam file into IGV but couldn't see anything
alignment
4.6 years ago by
dreamfeathers08
▴ 10
0
votes
2
replies
1.5k
views
bigWig tracks inconsistent with MACS2 callpeak
ChIP-Seq
MACS2
4.6 years ago by
lida
▴ 10
3
votes
6
replies
3.8k
views
Problem using PicardTools MarkDuplicates: SortingCollection: There is not enough memory per file for buffering. Reading will be unbuffered.
genome
updated 4.6 years ago by
Medhat
9.8k • written 4.6 years ago by
pengxw1990
• 0
0
votes
0
replies
896
views
Can I use FLEXBAR to detect and remove barcodes out of my short reads without demultiplexing ?
short reads
Illumina
barcodes removal
FLEXBAR
4.6 years ago by
giulia.trauzzi
▴ 30
0
votes
1
reply
1.2k
views
Structural variations intersection
next-gen
SNP
updated 4.6 years ago by
Biostar
20 • written 4.7 years ago by
tomilova.ekaterina.rp
• 0
1
vote
0
replies
2.8k
views
Merging subsets in Seurat after SCTransform
seurat
subset
sctransform
merge
DEGs
4.6 years ago by
VolEr
▴ 40
0
votes
0
replies
722
views
Missing S:N501Y from Clade 20H/501Y.V2 identified by Nextclade
Nextclade
4.6 years ago by
arash.iranzadeh1980
▴ 30
121,919 results • Page
711 of 2439
Recent Votes
A: Binning Over Genes And Calculating The Coverage [Bedops/Bedmap]
Answer: [vg giraffe] Unable to add read group to BAM file
Comment: [vg giraffe] Unable to add read group to BAM file
Answer: [vg giraffe] Unable to add read group to BAM file
Answer: vcf multisample
Answer: vcf multisample
Answer: vcf multisample
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Recent Replies
Comment: miRNA low mapping ratings
by
Ant
▴ 50
The first one it's the results from Cutadapter and the second block from miRDeep2.
Comment: miRNA low mapping ratings
by
Ant
▴ 50
Thanks for the reply, when running: cutadapt -a AACTGTAGGCACCATCAAT -M 30 -o example_trimmed.fastq.gz data/xxx.fastq.gz, the sequence le…
Comment: Help with species tree with orthofinder, iqtree and branch labeling
by
GenoMax
153k
> I don’t have clear species labels in my headers, only sequence IDs. I have not used iqtree, so this is only a thought ... should it be y…
Comment: Help with species tree with orthofinder, iqtree and branch labeling
by
san96
▴ 190
Thank you so much.
Comment: [vg giraffe] Unable to add read group to BAM file
by
saruman
▴ 10
Yes, it seems so. Thank you.
Comment: cellranger mkref fail/error
by
GenoMax
153k
> The thing is that I do not have a genome for these organisms. That is not what `cellranger mkref` is expecting. You could consider alt…
Comment: cellranger mkref fail/error
by
tatsispolychronis
• 0
The thing is that I do not have a genome for these organisms. i made a transcriptome using TRinity and this is what I am feeding it. I do n…
Comment: Genome Assembly QC from BAM files
by
SomeOne
▴ 240
Hi, I am not sure if i can call them good assemblies. Although based on QUAST and BUSCO stats, everything looks too good but somehow i hav…
Comment: cellranger mkref fail/error
by
GenoMax
153k
You need to provide the genome reference for the `--fasta` option as noted in https://www.10xgenomics.com/support/software/cell-ranger/late…
Answer: Methods to analyse structural similarity: co-evolution vs convergence
by
Joe
22k
Without historical data (ancient DNA) there's no way to ever really know this for certain. The best we can do is make inferences based on t…
Answer: vcf multisample
by
Pierre Lindenbaum
166k
eg : https://ega-archive.org/datasets/EGAD50000001683 > Merged VCF file from sporadic Meniere disease cohort (found using https://dat…
Comment: Genome Assembly QC from BAM files
by
GenoMax
153k
Since this saga has been on going for a long time, it will be helpful to add a comment as to how you finally got to this point of what seem…
Comment: Methods to analyse structural similarity: co-evolution vs convergence
by
dthorbur
★ 3.1k
A few comments. 1. Coevolution of a trait between 2 organisms can end up with a convergent structure with another organism. It's not e…
Comment: Genome Assembly QC from BAM files
by
SomeOne
▴ 240
Thank you. Based on the description these two look really what i wanted to see.
Comment: miRNA low mapping ratings
by
i.sudbery
22k
Also, can you just clarify that the output above is from cutadapt or form miRDeep2?
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