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121,913 results • Page
62 of 2439
Sort: Rank
Rank
Views
Votes
Replies
2
votes
6
replies
1.6k
views
Problem with mapping rate while using Mageck to process CRISPR screen data
crispr
screen
CRISPR-screen
mageck
mapping
updated 11 months ago by
ATpoint
89k • written 11 months ago by
Luwell
• 0
2
votes
2
replies
935
views
Basic question but how can I search the NCBI Nucleotide database using BLAST CLI
cli
blast
11 months ago by
Mark
▴ 60
6
votes
9
replies
1.9k
views
Permutations FGSEA
fgsea
11 months ago by
Nona
▴ 90
0
votes
0
replies
292
views
Bracken+Krakenuniq
Bracken
Krakenuniq
bracken-build
11 months ago by
Bhawna
• 0
0
votes
5
replies
844
views
NextSeq Data Shifted by One Line During Demultiplexing — What Could Cause This?
Demultiplexing
updated 11 months ago by
Arup Ghosh
3.4k • written 11 months ago by
pkk
• 0
0
votes
0
replies
259
views
Too many antimicrobial resistance gene from RGI bwt
wastewater
RGI
AMR
ARG
kraken2
11 months ago by
Pratibha kadam
• 0
0
votes
1
reply
468
views
I'm running a scATAC-seq analysis. However, the peaks I've called are somehow weird
macs2
scATAC-seq
signac
11 months ago by
Pallondyle
• 0
0
votes
1
reply
444
views
PacBio long reads and small plasmids
pacbio
plasmids
illumina
long
reads
updated 11 months ago by
GenoMax
153k • written 11 months ago by
Texx
▴ 40
0
votes
1
reply
865
views
i am having trouble with the VIBRANT embedded in Viroprofiler
VIBRANT
Viroprofiler
updated 11 months ago by
GenoMax
153k • written 2.1 years ago by
krmoon518
▴ 30
0
votes
0
replies
457
views
HOMER findPeaks: what does -fdr actually do?
homer
atac-seq
calling
peak
dap-seq
chip-seq
11 months ago by
mcsimenc
▴ 30
0
votes
0
replies
391
views
ChIP-seq Error with rtracklayer
ChIP-seq
rtracklayer
updated 11 months ago by
Ram
45k • written 11 months ago by
shamzar
• 0
0
votes
0
replies
341
views
EnrichKEGG issue
KEGG
overrepresentation
enrichment
11 months ago by
am29
▴ 60
0
votes
2
replies
711
views
Contig dereplication script not retrieving correct number of sequences
phage
ANI
metagenomics
dereplication
11 months ago by
bksakdinan.12
• 0
1
vote
2
replies
674
views
Multi OMICS analysis
Multi-variate
Multi-OMICS
updated 11 months ago by
Ming Tommy Tang
★ 4.7k • written 11 months ago by
SKY
▴ 60
0
votes
0
replies
348
views
GWAS() function error rrBLUP package for GWAS
R
Rstudio
rrBLUP
GWAS
updated 11 months ago by
Ram
45k • written 11 months ago by
giulia.trauzzi
▴ 30
0
votes
4
replies
646
views
Mapping PCR primers to human genome
mapping
primer
aligner
11 months ago by
Yvan
• 0
0
votes
0
replies
571
views
Using RunAzimuth with pbmcref on mouse data
mouse
scRNA-Seq
Suerat
Azimuth
11 months ago by
Assa Yeroslaviz
★ 1.9k
0
votes
1
reply
407
views
Mitochondrial Transcriptome Analysis with PacBio RNA Data using Geneious Prime
NGS
RNA-seq
PacBio
updated 11 months ago by
Ram
45k • written 11 months ago by
hashim.rana11
▴ 40
0
votes
0
replies
506
views
How to calculate F statistic in Mendelian Randomization?
Mendelian-Randomization
F-statistic
SNP
GWAS
updated 11 months ago by
Ram
45k • written 11 months ago by
Luke
• 0
1
vote
2
replies
822
views
SIngle cell analysis
scRNA-seq
FindVariableFeatures
Seurat
11 months ago by
JY
• 0
0
votes
0
replies
269
views
Extract mitochondrial contigs from draft contig-level genome using BLASTn
filtering
mitochondrial
contig
blastn
11 months ago by
anna_shin
• 0
1
vote
10
replies
2.2k
views
Does mageck-vispr calculate differently than mageck?
mageck
mageck-vispr
pooled-screen
cripsr
11 months ago by
Assa Yeroslaviz
★ 1.9k
2
votes
4
replies
960
views
Issues with pGIG : Negative probability and unexpected P value order
R
distribution
gamlss
fitting
11 months ago by
jayeshkumarsundaram
▴ 10
0
votes
0
replies
261
views
Bismark M-bias plot spikes in R2
Methyl-seq
11 months ago by
hj
• 0
2
votes
1
reply
493
views
Conda Environment Issue
conda
python
yaml
environments
dependencies
updated 11 months ago by
Ernest Bonat
▴ 30 • written 11 months ago by
cthangav
▴ 110
0
votes
1
reply
670
views
How to fix this error, please help.
LASSO
updated 11 months ago by
LChart
5.1k • written 11 months ago by
nuorain
▴ 40
0
votes
1
reply
364
views
Tool:
I Built a Website That Summarizes Your Research with 5 Emojis
web
students
career
academia
research
offtopic
updated 5 months ago by
Ram
45k • written 11 months ago by
bitsofadventures
▴ 40
0
votes
8
replies
1.7k
views
Question on batch effect for a bulk RNA seq analysis
RNA-seq
batch-effect
11 months ago by
akb
• 0
0
votes
2
replies
571
views
CCLE Cell lines annotations
CCLE_ID
updated 11 months ago by
yura.grabovska
▴ 820 • written 11 months ago by
Ivan
▴ 10
2
votes
6
replies
2.7k
views
How do I calculate read depth of sequencing?
illumina
read-depth
WGS
updated 11 months ago by
mazegriff
▴ 100 • written 11 months ago by
Madde
▴ 20
0
votes
1
reply
586
views
Unable to install VirSorter - Stuck on "Solving environment"
virsorter
virsorter2
conda
bioconda
updated 11 months ago by
Pierre Lindenbaum
166k • written 11 months ago by
boone5jones
• 0
2
votes
3
replies
1.0k
views
Use of gVCF by clinical sequencing labs
gvcf
updated 11 months ago by
Jeremy Leipzig
23k • written 11 months ago by
bdolin
▴ 100
0
votes
0
replies
338
views
News:
ONLINE COURSE – Introduction to Machine Learning using R and Rstudio (IMLR02)
Machine-Learning
updated 11 months ago by
Ram
45k • written 11 months ago by
oliverhooker
▴ 110
0
votes
0
replies
370
views
News:
ONLINE COURSE – Introduction to Single Cell Analysis (ISCA01)
Single-Cell
scRNA-Seq
updated 11 months ago by
Ram
45k • written 11 months ago by
oliverhooker
▴ 110
0
votes
2
replies
528
views
What to do if I have both pre-treatment AND WT samples from a CRISPRscreen to analyse
crispr
mageck
crisprscreen
screening
11 months ago by
chrisgr
▴ 20
2
votes
1
reply
420
views
Can VST be called Log2 expression in a paper?
DESeq2
updated 11 months ago by
ATpoint
89k • written 11 months ago by
BioSci
• 0
1
vote
5
replies
1.2k
views
Adapter removal using cutadapt and multiqc report:
Cutadapt
adapter
MultiQC
illumina
fastes
updated 11 months ago by
mazegriff
▴ 100 • written 11 months ago by
ayeraselvan
▴ 10
0
votes
2
replies
552
views
Circos tool
karyotype
circos
11 months ago by
naveennavinbeast
• 0
2
votes
1
reply
732
views
Feature Counts: low assigned alignments (1.9%) with -s 0: Unstranded option any assigned alignments with -s 2: reversely strandedoptionts
alignments
RNA-seq
updated 11 months ago by
Ram
45k • written 11 months ago by
francesca.catellani
• 0
1
vote
6
replies
904
views
0-based or 1-based file format using R pipeline?
1-based
0-based
r
updated 11 months ago by
Ram
45k • written 11 months ago by
Sophia
• 0
4
votes
6
replies
1.1k
views
merging of two assemblies from different short-reads techniques
hybrid
illumina
assembly
DNBSEQ
updated 11 months ago by
GenoMax
153k • written 11 months ago by
Andrew Yu
• 0
0
votes
4
replies
712
views
Extracting orthologues from MSA
MSA
11 months ago by
Christos
• 0
0
votes
0
replies
253
views
AS for KEGG analysis
RNAseq
11 months ago by
SHIRUI
▴ 10
9
votes
10
replies
1.5k
views
How to handle RNA seq data with unbalanced % rRNA by group?
fastqscreen
rRNA
DESeq2
RNAseq
DGE
updated 11 months ago by
Carlo Yague
9.0k • written 11 months ago by
ev97
▴ 40
1
vote
8
replies
1.4k
views
genome annotation and GFF file formation
MetaEuk
GFF
whole-genome-annotation
updated 11 months ago by
Juke34
9.3k • written 11 months ago by
manaswiniparija3
▴ 60
0
votes
0
replies
301
views
how to calculate te RSA values of each residue of a protein using DSSP?
RSA
proteins
updated 11 months ago by
Ram
45k • written 11 months ago by
raul enrique
• 0
2
votes
2
replies
912
views
Outlier after DEseq2 in meta-analysis
meta-analysis
rna-seq
outlier
DESeq2
11 months ago by
a.stef.44
▴ 10
0
votes
0
replies
435
views
Optimizing mutect/sarek for somatic substitution variant calling
mutect2
tumor-normal
sarek
variant-calling
updated 11 months ago by
Ram
45k • written 11 months ago by
ramiro.barrantes
▴ 60
0
votes
2
replies
939
views
Appropriate minimum gene set size for gene set enrichment analysis
HTSanalyzer
gsea
FGSEA
11 months ago by
Nona
▴ 90
0
votes
0
replies
407
views
News:
Course - Introduction to the Analysis of Longitudinal Data in Biology Using R
Longitudinal-Data
R
Epidemiology
Forecasting
Gene-Expression
updated 11 months ago by
Ram
45k • written 11 months ago by
Physalia-courses
★ 2.6k
121,913 results • Page
62 of 2439
Recent Votes
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Answer: Different UMAP for batch correction in R and Pytho
Answer: Different UMAP for batch correction in R and Pytho
Answer: Different UMAP for batch correction in R and Pytho
A: How to extract reads with no INDEL?
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Recent Replies
Comment: Concatenate multiple MUSCLE alignment result to build a phylogenetic tree
by
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▴ 190
Hi Mensur, sorry for this but I'm a little stuck. I’m trying to build a species tree for the first time and I would like to clarify a few …
Comment: Tried building a compact sequence format with 4-bit storage
by
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36k
In addition to looking at other tools as a baseline: https://en.wikipedia.org/wiki/Compression_of_genomic_sequencing_data maybe also look i…
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Thanks, António for a helpful, detailed response. I didn't take into consideration that the plotting order of cells from each batch can be …
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It seems that using the following format fixes the problem: --read-group "1 SM:HG002 LB:lib1 PL:illumina PU:unit1" As shown below: …
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by
dariober
15k
> what if we can use the bytes to develop a model? My understanding is that the OP is considering building a model using the sequences in …
Comment: WGCNA package in R: dendogram plot error
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You might had delete the outliers from the expression table but then the traits data.frame doesn't match with expression table dimensions.
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No, it's a personal dataset. I haven’t seen the link, but if I understand correctly, it's not possible to use the software for free, right?
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153k
So this is a public dataset? QIAseq miRNA libraries may require special handling. Have you seen --> https://resources.qiagenbioinformatics.…
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153k
Are you referring to software found here --> http://download.arb-home.de/release/latest/ ? If so why are you installing the source. Authors…
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by
GenoMax
153k
All valid points. This is a SRA dataset. If it is covered by a publication hopefully it is not a bad one. @Pranav if you can post the SRA a…
Answer: Different UMAP for batch correction in R and Pytho
by
antonioggsousa
3.4k
Hi, I'm mostly an R user, but the codes you presented look correct to me. The two UMAP projections *"look too similar to be different"*, …
Answer: How to properly assemble phage genomes?
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22k
This might help: https://millardlab.org/lab-members/alumni/lucy-gannon/lucys-beginner-guide-to-bacteriophage-genome-assembly/
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by
piffelpaff
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Thanks for your reply. Yes it's single-cell and we're talking about roughly 30 pre-selected genes. I see. I was rather referring to the d…
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22k
This may not be exactly what you're looking for (kind of the other way around, predicting synthetic clusters from genes rather than the pro…
Comment: Developing a genomics ML model using bytes?
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ATpoint
89k
How is this different from https://www.biostars.org/p/9615062/
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