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566 results • Page
2 of 12
Sort: replies
Rank
Views
Votes
Replies
0
votes
6
replies
331
views
variant allelic fraction
vep
updated 22 hours ago by
Ram
39k • written 2 days ago by
Jom
• 0
4
votes
6
replies
544
views
How to pass from DNA to AA fasta
genetics
updated 15 days ago by
Buffo
★ 2.2k • written 18 days ago by
Anderson Stiward
• 0
3
votes
6
replies
582
views
Convert Nanopore Fast5 files to Fasta format
fast5
fasta
Nanopore
14 days ago by
Sowmya Pulapet
▴ 30
6
votes
6
replies
582
views
On "wings" in volcano plots...
DEG
volcano
DGE
statistics
DE
updated 18 days ago by
ATpoint
72k • written 19 days ago by
kalavattam
▴ 120
2
votes
6
replies
386
views
Find data-based Gene_IDs for unknown gene_IDs in gtf.file
RNA-SEQ
annotation
GO-term
16 days ago by
Pegasus
▴ 90
3
votes
5
replies
432
views
STAR error with a loop
STAR
RNA
transcriptomics
updated 26 days ago by
Ram
39k • written 6 months ago by
luzglongoria
▴ 40
0
votes
5
replies
710
views
vcftools --weir-fst-pop returns -nan
fst
vcftools
updated 8 days ago by
mingxi
• 0 • written 5 months ago by
elizabeth
• 0
3
votes
5
replies
1.3k
views
Trouble with best practices
samtools
WES
NGS
GATK
updated 18 days ago by
Ram
39k • written 5.3 years ago by
erarroji
• 0
0
votes
5
replies
414
views
combine/merge closet variants into one from mutect2
variants
mutect2
merge
gatk
updated 22 days ago by
Istvan Albert
98k • written 28 days ago by
J.F.Jiang
▴ 900
0
votes
5
replies
511
views
get allele frequency (MAF) value from snp
biomaRt
MAF
ensembl
SNP
R
25 days ago by
Barista
• 0
0
votes
5
replies
597
views
Making disjoint chromosomal sites contiguous with awk
awk
assembly
bash
sequence
updated 18 days ago by
Ram
39k • written 2.6 years ago by
selplat21
▴ 20
0
votes
5
replies
852
views
trimmomatic unknown trimmer
Trimmomatic
updated 22 days ago by
Ram
39k • written 20 months ago by
Xiaoyun
▴ 10
3
votes
5
replies
362
views
Uniprot API access to download .pdb files
PDB
API
Python
Uniprot
13 days ago by
jdrohan
• 0
0
votes
5
replies
360
views
Problem with GPU guppy_basecaller and SLURM
nanopore
guppy
updated 15 days ago by
Medhat
9.6k • written 15 days ago by
kenneditodd
▴ 10
1
vote
5
replies
3.6k
views
Time-series or pairwise comparison EdgeR - what's more suited?
DGE-analysis
Time-series
pairwise
updated 7 days ago by
Ram
39k • written 6.8 years ago by
Biogeek
▴ 470
1
vote
5
replies
1.3k
views
WGCNA Co-expression network analysis on cuffdiff output
wgcna
cuffdiff
updated 13 days ago by
Ram
39k • written 4.7 years ago by
sbb
▴ 10
0
votes
5
replies
3.1k
views
Phylogeny Heatmap with Python
multiple-sequence-alignment
updated 21 days ago by
Ram
39k • written 4.2 years ago by
marina.gerges
• 0
5
votes
5
replies
1.6k
views
bio-newbie / gene research / tools and methods
methods
research
gene
updated 19 days ago by
Ram
39k • written 5.4 years ago by
wizofe
• 0
0
votes
5
replies
389
views
how to Construct a Newick tree file from five large fasta files
tree
Newick
alignment
updated 4 days ago by
Joe
21k • written 5 days ago by
gunala.nikhil
• 0
0
votes
5
replies
951
views
Bioinformatics conference with possible publication
conference
updated 12 days ago by
Ram
39k • written 4.7 years ago by
bharata1803
▴ 550
0
votes
5
replies
806
views
Read DNA sequence from FASTA rising a subclass?
FASTA
python
updated 18 days ago by
Ram
39k • written 2.6 years ago by
Gonçalo
• 0
2
votes
5
replies
390
views
RNA SEQ reads assembly for illumina sequenced data
NGS
linux
nanopore
updated 27 days ago by
Ram
39k • written 5 weeks ago by
Adyasha
• 0
2
votes
5
replies
418
views
Cutadapt error: too many parameters.
cutadapt
parallel
bash
8 days ago by
DanielEB_fisk
▴ 10
1
vote
5
replies
2.3k
views
Calculating distance matrix of RNA-seq data
Dynamic-Time-Warping
R
time-series
updated 7 days ago by
Ram
39k • written 5.2 years ago by
fi1d18
★ 4.2k
2
votes
5
replies
292
views
Embryo transcriptome
database
transcriptome
SRA
updated 1 day ago by
ATpoint
72k • written 1 day ago by
firefox91
• 0
2
votes
5
replies
444
views
How to check a gene in an open chromatin region or not?
ATAC-seq
29 days ago by
Chris
▴ 100
0
votes
5
replies
1.4k
views
Best Blast Hits from Tabular Outputs in Multiple files
python
shell
blast
updated 20 days ago by
Ram
39k • written 5.7 years ago by
trini1god
• 0
1
vote
5
replies
537
views
kraken on nt library
kraken
nt
15 days ago by
Francois Piumi
▴ 30
0
votes
5
replies
2.0k
views
error during installationi of KisSplice
cpp
c
RNA-Seq
kissplice
SNP
updated 15 days ago by
Ram
39k • written 6.8 years ago by
yoyofangliu
• 0
0
votes
5
replies
1.5k
views
terminal can't activate base automatically (conda)
conda
updated 26 days ago by
Ram
39k • written 22 months ago by
Binghong
▴ 20
4
votes
5
replies
1.2k
views
Distributed / parallel computing in bioinformatics
distributed-computing
updated 22 days ago by
Ram
39k • written 5.9 years ago by
CY
▴ 710
1
vote
4
replies
962
views
Simulate the sequence data
next-gen-sequencing
genetics
updated 15 days ago by
Ram
39k • written 5.1 years ago by
bha
▴ 80
0
votes
4
replies
484
views
BBduk reading fastq from S3 directly - Is it possibile?
BBduk
BBTools
BBMap
16 days ago by
Marko
▴ 10
0
votes
4
replies
367
views
What are recommended parameters for the local protein alignment ?
protein
alignment
3 days ago by
Alexander
▴ 70
3
votes
4
replies
1.3k
views
fastPHASE -F provided to estimate haplotype frequencies, but no freqs in output
genomics
phasing
fastPHASE
updated 15 days ago by
Ram
39k • written 5.2 years ago by
lakemonster
▴ 10
4
votes
4
replies
360
views
Segmentation fault Biopython pairwise alignment
biopython
alignment
updated 8 days ago by
Joe
21k • written 12 days ago by
antoine.fauchois92
▴ 20
0
votes
4
replies
698
views
blast engine error empty blast query vector
Blast
alignment
updated 26 days ago by
Ram
39k • written 4 months ago by
Sowmya Pulapet
▴ 30
1
vote
4
replies
811
views
R package error messages have missing package names
R
updated 22 days ago by
Ram
39k • written 20 months ago by
Rahul Tyagi
• 0
0
votes
4
replies
2.1k
views
picard markduplicate output smaller file
picard
markduplicates
gatk
updated 11 days ago by
Ram
39k • written 4.4 years ago by
Peter Chung
▴ 190
1
vote
4
replies
2.3k
views
Using a Multiple Seq Alignment tool for pairwise alignments possible?
multiple-sequence-alignment
msa
alignment
updated 21 days ago by
Ram
39k • written 7.1 years ago by
nchuang
▴ 260
12
votes
4
replies
504
views
Annotating TSS: By Transcript or by Gene? Code Validation Help Needed!
genome
bed
transcript
TSS
23 days ago by
Rafael Soler
★ 1.2k
0
votes
4
replies
350
views
desgin a primer for CDS
gene
pcr
10 days ago by
yuxiang
• 0
3
votes
4
replies
3.8k
views
What are the Pros and Cons of working in Bioinformatics???
career
bio
updated 18 days ago by
Ram
39k • written 5.3 years ago by
scottschu97
▴ 20
2
votes
4
replies
610
views
DESeq2 batch effects with nonuniform design matrix
DESeqDataSet
DESeq2
batch
updated 25 days ago by
Ram
39k • written 12 months ago by
mcsimenc
▴ 20
0
votes
4
replies
202
views
Difference between USCS exon coordinates and ensembl
exons
Ensembl
1 day ago by
amy__
▴ 50
4
votes
4
replies
293
views
Does adding reads cause batch effects?
kallisto
RNAseq
updated 5 days ago by
ATpoint
72k • written 5 days ago by
bioinfo
▴ 80
0
votes
4
replies
1.3k
views
File not found error on program installation.
samtools
htslib
Cpp
updated 15 days ago by
Ram
39k • written 3.6 years ago by
M.O.L.S
▴ 100
1
vote
4
replies
4.9k
views
Conditionally coloring the fold change values to plot a heatmap using pheatmap
R
heatmap
updated 18 days ago by
Ram
39k • written 5.3 years ago by
chetana
▴ 60
1
vote
4
replies
2.5k
views
DBD::mysql::st execute failed: The table 'InplgOrthoInplg
orthomcl
ortho
ubuntu
mysql
updated 13 days ago by
Ram
39k • written 5.0 years ago by
wocana
▴ 20
0
votes
4
replies
5.0k
views
Calculate Radius of Gyration [python 3]
biopython
PDB
Radius of Gyration
python
protein
updated 1 day ago by
Franco
• 0 • written 5.6 years ago by
ac.research
▴ 30
566 results • Page
2 of 12
Recent Votes
ChatGPT optimized for bioinformatics questions
Comment: ChatGPT optimized for bioinformatics questions
Comment: ChatGPT optimized for bioinformatics questions
ChatGPT optimized for bioinformatics questions
Comment: ChatGPT optimized for bioinformatics questions
Comment: ChatGPT optimized for bioinformatics questions
ChatGPT optimized for bioinformatics questions
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Comment: retaining only the clusters of interest
by
Ram
39k
You're close. The `subset` function serves a similar functionality as the base, but since the Seurat object is an S3 object, it subsets bas…
Answer: ChatGPT optimized for bioinformatics questions
by
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39k
I asked the same questions to tinyBio and chatGPT and chatGPT gave me better answers. This could be because chatGPT has been out for a whil…
Comment: ChatGPT optimized for bioinformatics questions
by
Sasha
▴ 240
Hi GenoMax - it's primed on Github repos, some personality tuning, and some prompt assumptions based on the context of the site being bioin…
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The `DiffBind` vignette attempts to explain how tis in handled in step-by-step detail, that is another good place to start. The direct a…
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You may want to add `Replicate` to your design formula to model the batch effect (assuming the same replicate is the outlier in both condit…
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by
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129k
Can you elaborate on how you trained the bot specifically on bioinformatics content? Where is the content coming from?
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129k
As a test I posed your question to a bioinformatics bot that was just announced on Biostars. You can find it here : https://ai.tinybio.clou…
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If you are calling `dba.normalize()` directly, it must be called *after* calling `dba.count()`. `dba.count()` will apply the default normal…
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If you are simply replacing the library prep kit then it will be compatible with normal illumina libraries. If there is a different adapter…
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by
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yes, I have activated this conda environment. And the conda is in `PATH` . At first, I create a new conda environment `conda create -n ne…
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72k
Raw counts, raw meaning not manipulated by any transformation. See limma and edgeR manual, it clearly covers that for using limma-trend and…
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https://support.bioconductor.org/p/9143932/ -- see the lower parts where Michael Love answers, it comes down to numeric contrasts.
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The `mat` is log2-normalized raw data. Is it feasible? Or should I feed in counts?
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Nope, please read the manual of DESeq2, it clearly tells to use raw counts. What "normalized counts" do you have exactly? limma-trend might…
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Did you activate your conda environment? Is conda in `PATH`? Please describe what you did.
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