Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : this month
all time
today
this week
this month
this year
542 results • Page
2 of 11
Sort: replies
Rank
Views
Votes
Replies
1
vote
6
replies
568
views
DESeq2
heatmap
R
DESeq2
26 days ago by
Nelo
• 0
4
votes
6
replies
537
views
How to pass from DNA to AA fasta
genetics
updated 13 days ago by
Buffo
★ 2.2k • written 16 days ago by
Anderson Stiward
• 0
0
votes
5
replies
407
views
combine/merge closet variants into one from mutect2
variants
mutect2
merge
gatk
updated 20 days ago by
Istvan Albert
98k • written 25 days ago by
J.F.Jiang
▴ 900
1
vote
5
replies
2.3k
views
Calculating distance matrix of RNA-seq data
Dynamic-Time-Warping
R
time-series
updated 5 days ago by
Ram
39k • written 5.2 years ago by
fi1d18
★ 4.2k
2
votes
5
replies
413
views
Cutadapt error: too many parameters.
cutadapt
parallel
bash
5 days ago by
DanielEB_fisk
• 0
0
votes
5
replies
2.0k
views
error during installationi of KisSplice
cpp
c
RNA-Seq
kissplice
SNP
updated 13 days ago by
Ram
39k • written 6.8 years ago by
yoyofangliu
• 0
3
votes
5
replies
430
views
STAR error with a loop
STAR
RNA
transcriptomics
updated 24 days ago by
Ram
39k • written 6 months ago by
luzglongoria
▴ 40
1
vote
5
replies
3.6k
views
Time-series or pairwise comparison EdgeR - what's more suited?
DGE-analysis
Time-series
pairwise
updated 5 days ago by
Ram
39k • written 6.8 years ago by
Biogeek
▴ 470
0
votes
5
replies
498
views
get allele frequency (MAF) value from snp
biomaRt
MAF
ensembl
SNP
R
22 days ago by
Barista
• 0
0
votes
5
replies
341
views
Problem with GPU guppy_basecaller and SLURM
nanopore
guppy
updated 12 days ago by
Medhat
9.6k • written 13 days ago by
kenneditodd
▴ 10
2
votes
5
replies
443
views
How to check a gene in an open chromatin region or not?
ATAC-seq
26 days ago by
Chris
▴ 100
0
votes
5
replies
596
views
Making disjoint chromosomal sites contiguous with awk
awk
assembly
bash
sequence
updated 16 days ago by
Ram
39k • written 2.6 years ago by
selplat21
▴ 20
0
votes
5
replies
1.5k
views
terminal can't activate base automatically (conda)
conda
updated 24 days ago by
Ram
39k • written 21 months ago by
Binghong
▴ 20
0
votes
5
replies
338
views
how to Construct a Newick tree file from five large fasta files
tree
Newick
alignment
updated 2 days ago by
Joe
21k • written 2 days ago by
gunala.nikhil
• 0
5
votes
5
replies
1.6k
views
bio-newbie / gene research / tools and methods
methods
research
gene
updated 17 days ago by
Ram
39k • written 5.4 years ago by
wizofe
• 0
1
vote
5
replies
1.3k
views
WGCNA Co-expression network analysis on cuffdiff output
wgcna
cuffdiff
updated 11 days ago by
Ram
39k • written 4.7 years ago by
sbb
▴ 10
0
votes
5
replies
459
views
Splitting heatmap
R
updated 27 days ago by
Papyrus
★ 2.5k • written 29 days ago by
hafiz.talhamalik
▴ 350
3
votes
5
replies
1.3k
views
Trouble with best practices
samtools
WES
NGS
GATK
updated 16 days ago by
Ram
39k • written 5.3 years ago by
erarroji
• 0
3
votes
5
replies
353
views
Uniprot API access to download .pdb files
PDB
API
Python
Uniprot
11 days ago by
jdrohan
• 0
0
votes
5
replies
1.4k
views
Best Blast Hits from Tabular Outputs in Multiple files
python
shell
blast
updated 18 days ago by
Ram
39k • written 5.6 years ago by
trini1god
• 0
0
votes
5
replies
706
views
vcftools --weir-fst-pop returns -nan
fst
vcftools
updated 5 days ago by
mingxi
• 0 • written 5 months ago by
elizabeth
• 0
0
votes
5
replies
3.1k
views
Phylogeny Heatmap with Python
multiple-sequence-alignment
updated 19 days ago by
Ram
39k • written 4.2 years ago by
marina.gerges
• 0
0
votes
5
replies
805
views
Read DNA sequence from FASTA rising a subclass?
FASTA
python
updated 16 days ago by
Ram
39k • written 2.6 years ago by
Gonçalo
• 0
0
votes
5
replies
950
views
Bioinformatics conference with possible publication
conference
updated 10 days ago by
Ram
39k • written 4.7 years ago by
bharata1803
▴ 550
1
vote
5
replies
524
views
kraken on nt library
kraken
nt
12 days ago by
Francois Piumi
▴ 30
0
votes
5
replies
847
views
trimmomatic unknown trimmer
Trimmomatic
updated 20 days ago by
Ram
39k • written 20 months ago by
Xiaoyun
▴ 10
4
votes
5
replies
1.2k
views
Distributed / parallel computing in bioinformatics
distributed-computing
updated 20 days ago by
Ram
39k • written 5.9 years ago by
CY
▴ 710
2
votes
5
replies
388
views
RNA SEQ reads assembly for illumina sequenced data
NGS
linux
nanopore
updated 25 days ago by
Ram
39k • written 4 weeks ago by
Adyasha
• 0
0
votes
4
replies
860
views
bowtie2 -all ... multiple alignment Chip-seq
bowtie2
alignment
ChIP-Seq
multiple-alignment
updated 19 days ago by
Ram
39k • written 3.6 years ago by
poltora4enko
▴ 10
2
votes
4
replies
607
views
DESeq2 batch effects with nonuniform design matrix
DESeqDataSet
DESeq2
batch
updated 23 days ago by
Ram
39k • written 12 months ago by
mcsimenc
▴ 20
4
votes
4
replies
269
views
Does adding reads cause batch effects?
kallisto
RNAseq
updated 3 days ago by
ATpoint
72k • written 3 days ago by
bioinfo
▴ 80
0
votes
4
replies
2.1k
views
picard markduplicate output smaller file
picard
markduplicates
gatk
updated 9 days ago by
Ram
39k • written 4.4 years ago by
Peter Chung
▴ 190
0
votes
4
replies
288
views
How do I add row names to pheatmap() when I am using a pre-normalized matrix?
pheatmap
heatmap
rna-seq
updated 9 days ago by
Trivas
★ 1.2k • written 10 days ago by
mgranada3
• 0
0
votes
4
replies
4.8k
views
Sequence alignment length
multiple-sequence-alignment
updated 19 days ago by
Ram
39k • written 6.3 years ago by
biobudhan
▴ 20
1
vote
4
replies
1.5k
views
Time series event recurrence comparison
recurrence
time-series
updated 5 days ago by
Ram
39k • written 6.7 years ago by
Nicolas Rosewick
10k
3
votes
4
replies
1.3k
views
fastPHASE -F provided to estimate haplotype frequencies, but no freqs in output
genomics
phasing
fastPHASE
updated 13 days ago by
Ram
39k • written 5.2 years ago by
lakemonster
▴ 10
1
vote
4
replies
811
views
R package error messages have missing package names
R
updated 20 days ago by
Ram
39k • written 20 months ago by
Rahul Tyagi
• 0
1
vote
4
replies
269
views
My VCF file structure is strange and less compatible to data processing programs.
VCF
GATK
SNPs
updated 25 days ago by
Istvan Albert
98k • written 25 days ago by
kgwkk2
• 0
0
votes
4
replies
3.7k
views
What is Dunn's multiple comparison test?
statistics
updated 19 days ago by
Ram
39k • written 5.7 years ago by
Koreanraichu
• 0
2
votes
4
replies
1.3k
views
hisat2 SyntaxError: invalid syntax
alignment
hisat2
updated 20 days ago by
Ram
39k • written 19 months ago by
Xiaoyun
▴ 10
0
votes
4
replies
386
views
BCL2 fusions not detected in RNA level
fusion
RNA
BCL2
updated 29 days ago by
ATpoint
72k • written 4 weeks ago by
J.F.Jiang
▴ 900
1
vote
4
replies
962
views
Simulate the sequence data
next-gen-sequencing
genetics
updated 13 days ago by
Ram
39k • written 5.1 years ago by
bha
▴ 80
0
votes
4
replies
1.6k
views
Extra header column stopping EMMAX (C), but not seen in input files
emmax
genomics
Cpp
plink
GWAS
updated 13 days ago by
Ram
39k • written 5.3 years ago by
michael.nagle
▴ 100
0
votes
4
replies
683
views
blast engine error empty blast query vector
Blast
alignment
updated 24 days ago by
Ram
39k • written 4 months ago by
Sowmya Pulapet
▴ 30
0
votes
4
replies
481
views
BBduk reading fastq from S3 directly - Is it possibile?
BBduk
BBTools
BBMap
14 days ago by
Marko
▴ 10
1
vote
4
replies
553
views
What statistical test to apply for DE after CibersortX deconvolution
cibersortx
differential-expression
t-test
deconvolution
updated 23 days ago by
ATpoint
72k • written 5 weeks ago by
Sam
▴ 280
3
votes
4
replies
630
views
R package DESeq2 in R 3.5.1
R
updated 24 days ago by
Ram
39k • written 4 months ago by
sehriban.buyukkilic
• 0
0
votes
4
replies
1.3k
views
File not found error on program installation.
samtools
htslib
Cpp
updated 13 days ago by
Ram
39k • written 3.6 years ago by
M.O.L.S
▴ 100
0
votes
4
replies
282
views
I need help with a methyl array data analysis
methyl_array
DMPs
DMRs
beta_value
r
7 days ago by
Ahmad
▴ 10
0
votes
4
replies
339
views
desgin a primer for CDS
gene
pcr
8 days ago by
yuxiang
• 0
542 results • Page
2 of 11
Recent Votes
Answer: How to make the profile line of `deepTools::plotHeatmap` more smooth?
Comment: Getting species names and taxa id from assembly accession number
Comment: STAR GenomeIndex output (which is the BAM file?)
Answer: [Meta] Use of AI
Answer: h5ad cellxgene to R
Comment: What is the benefit of knowing the source of contamination when we have RNAseq d
Answer: Rna-Seq Pipeline
Recent Locations •
All
United States,
just now
Moscow,
8 minutes ago
United States,
26 minutes ago
Australia,
28 minutes ago
United States,
29 minutes ago
Republic of Ireland,
29 minutes ago
Australia,
31 minutes ago
Recent Awards •
All
Popular Question
to
benformatics
3.6k
Popular Question
to
Dan
▴ 120
Supporter
to
rfran010
▴ 110
Popular Question
to
Siavash Salek Ardestani
▴ 20
Popular Question
to
Nai
▴ 50
Popular Question
to
Arindam Ghosh
▴ 500
Commentator
to
SmallChess
▴ 630
Recent Replies
Comment: How do I explain the difference between edgeR, LIMMA, DESeq etc. to experimental
by
Kevin Blighe
85k
Hello friend. Life moves on...
Comment: How to make the profile line of `deepTools::plotHeatmap` more smooth?
by
Dan
▴ 120
Do you mean I should check the intersections between the peaks in the `bed` file using `bedtools intersect` (https://bedtools.readthedocs.i…
Answer: How to make the profile line of `deepTools::plotHeatmap` more smooth?
by
Trivas
★ 1.2k
Your issue is with your bed file then, not necessarily with deep tools. I'd look into the bedtools suite to see if you can minimize overlap…
Comment: variant allelic fraction
by
Pierre Lindenbaum
154k
https://www.biostars.org/p/492331/
Comment: variant allelic fraction
by
malm
• 0
ok how can i calculate it from the vep file?
Comment: Filtering mitochondrial reads from ATAC-Seq aligned reads- what to do with reads
by
benformatics
3.6k
I think it would be fair (and conservative) to remove read pairs where one maps to the mitochondrial genome. It should be a relatively very…
Answer: Convert Bam file to Fastq
by
Michael
52k
I think your code is incorrect bash syntax. I think you want something like this: sort bam_headers.txt > bam_haeders-sorted.txt # c…
Comment: Combination of ROC CURVE
by
Maria17
▴ 20
For example, if three targets are combined and the mean value is plotted, the different combinations give different numbers, but there are …
Comment: How do I explain the difference between edgeR, LIMMA, DESeq etc. to experimental
by
Kermit
▴ 80
neither simple nor helpful, but perhaps the OP changed his question away from "why might diff models produce diff results" to the current "…
Comment: Convert Bam file to Fastq
by
Michael
52k
At first, I would trust samtools to do the right thing but of course it doesn't hurt to double check. But I think the crux is what is in fa…
Comment: Convert Bam file to Fastq
by
Pierre Lindenbaum
154k
paste fastq1_read_ids.txt fastq2_read_ids.txt is a tabular file with two column. Is it the same for bam_read_names.txt ?
Comment: variant allelic fraction
by
Pierre Lindenbaum
154k
this is not a field provided by VEP.
Answer: WGCNA Trait File Issues
by
Jennifer M
• 0
![enter image description here][1] [1]: /media/images/0cf4eaa7-9550-4bbb-b43e-208dc787
Comment: Pairwise Alignment
by
WouterDeCoster
47k
> for whole genome analysis What do you mean with that? You provide too little information for us to answer your question.
Comment: Getting species names and taxa id from assembly accession number
by
GenoMax
129k
There must be some temporary glitch. Following command works (via EntrezDirect): $ esearch -db assembly -query GCA_000001405.29 | esu…
Traffic: 1671 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6