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122,232 results • Page
14 of 2445
Sort: Rank
Rank
Views
Votes
Replies
5
votes
3
replies
701
views
How to determine phix read in undermined fastq files
demultiplexing
updated 3 months ago by
GenoMax
154k • written 3 months ago by
1769mkc
★ 1.3k
0
votes
2
replies
1.2k
views
Job:
Job search for Data Engineer role
engineer
data
updated 3 months ago by
Matthias Zepper
5.2k • written 3 months ago by
itparanoia
• 0
0
votes
6
replies
1.1k
views
nanopore long sequencing DNA data data basecalling using EPI2ME ,NEXTFLOW and singualrity in cluster env have error : ERROR ~ Error executing process…
basecalling
3 months ago by
reziyamaimaiti0331
• 0
6
votes
4
replies
916
views
Nextflow STAR alignment process only aligning one fastq file when 6 are being passed in
Nextflow
RNA-seq
3 months ago by
smarcotte11
▴ 10
0
votes
0
replies
900
views
News:
online course: Single-cell RNA-seq Analysis with R/Bioconductor
Bioconductor
single-cell-RNAseq
3 months ago by
Physalia-courses
★ 2.7k
0
votes
0
replies
550
views
How to Generate PacBio HiFi Reads with Ground Truth Using PBSIM3?
pacbio
pbsim
pbsim3
3 months ago by
DBPZ
• 0
0
votes
0
replies
923
views
News:
Online course: Bioinformatic Analysis of Transposable Elements
Transcriptomics
TransposableElements
ManualCuration
GenomeAssembly
3 months ago by
Physalia-courses
★ 2.7k
4
votes
4
replies
1.1k
views
"No space left on device" error when making DIAMOND database, alternative download method?
database
diamond
updated 3 months ago by
Mensur Dlakic
★ 30k • written 3 months ago by
pahurkar.arjun
• 0
0
votes
3
replies
897
views
Uninformative Cluster in scRNAseq
scRNAseq
QC
Doublets
updated 3 months ago by
Arup Ghosh
3.5k • written 3 months ago by
karlensberg
• 0
1
vote
2
replies
618
views
How to retrieve metadata for multiple genbank records
metadata
Genbank
3 months ago by
SushiRoll
▴ 140
7
votes
5
replies
1.4k
views
Best practice to merge per sample variant calls from personalized pangenomes
graph
vcf
haplotype-sampling
vg
personalized-pangenome
updated 3 months ago by
GenoMax
154k • written 4 months ago by
Tobias
▴ 40
0
votes
2
replies
754
views
Why does the number of sequences increase after using Hi-C to mount chromosomes?
YAHS
hifiasm
assembly
Hi-C
Gene
updated 3 months ago by
shelkmike
★ 1.8k • written 3 months ago by
xinguok794
▴ 10
1
vote
3
replies
700
views
Difficulties with assembly
MEGAHIT
Eukaryote
Assembly
updated 3 months ago by
shelkmike
★ 1.8k • written 3 months ago by
Mokammel Hossain
• 0
1
vote
2
replies
702
views
Seurat DimPlot generates a weird data frame together with the scatter plot
R
Seurat
3 months ago by
solo.albif
• 0
5
votes
5
replies
5.5k
views
How to download intronic positions from Ensembl
genome
ensembl
updated 3 months ago by
peterdion
• 0 • written 9.9 years ago by
Ati
▴ 50
0
votes
11
replies
1.2k
views
Current size of blast nr database as FASTA file
fasta
blast
updated 3 months ago by
lieven.sterck
16k • written 3 months ago by
pahurkar.arjun
• 0
1
vote
5
replies
876
views
SRA FTP Upload Issue
FTP
SRA
NCBI
updated 3 months ago by
Jesse
▴ 890 • written 3 months ago by
saamhasan55
▴ 30
4
votes
4
replies
796
views
How to calculate total and average read counts from paired-end and singleton FASTQ files?
Metagenomics
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Sachin
▴ 20
2
votes
1
reply
492
views
New computer purchase
Linux
updated 3 months ago by
GenoMax
154k • written 3 months ago by
Edward
• 0
0
votes
0
replies
1.1k
views
News:
Python for Biological Data Exploration & Visualization (PYBD01)
Python
updated 3 months ago by
GenoMax
154k • written 3 months ago by
oliverhooker
▴ 110
0
votes
0
replies
871
views
News:
Introduction to Machine Learning (IMLR04)
Learning
R
Machine
updated 3 months ago by
GenoMax
154k • written 3 months ago by
oliverhooker
▴ 110
0
votes
2
replies
742
views
When absolute protein quantification isn't possible, what anaylses work on ranked expression?
DIA-MS
proteomics
updated 3 months ago by
Ram
45k • written 3 months ago by
Ali
• 0
0
votes
0
replies
492
views
lncRNA and mRNA correlation analysis results
correlation
lncRNA
ncRNA
coexpression
mRNA
3 months ago by
Zeynep
• 0
0
votes
2
replies
1.3k
views
Scanpy Dotplot / Matplotlib Help
Matplotlib
Dotplot
Python
Scanpy
4 months ago by
cthangav
▴ 110
4
votes
2
replies
732
views
Help regarding quality control of 10X run?
10x
nuclei
qc
scnuc
updated 4 months ago by
jared.andrews07
★ 19k • written 4 months ago by
Pratik
★ 1.1k
0
votes
1
reply
658
views
PLINK 1.9 and ADMIXTURE 1.3.0 Help with renaming
Admixture
error
Plink
debugging
coding
updated 4 months ago by
Corentin
▴ 660 • written 4 months ago by
Jens
• 0
0
votes
0
replies
427
views
salmon alevin multimapping reads/ tier3 genes
salmon
alevin
4 months ago by
nmannda148
• 0
5
votes
3
replies
730
views
How can I confidently determine if my genome sequence Is truly Anaplasma marginale?
anaplasma
genomics
marginale
omics
updated 3 months ago by
Ram
45k • written 4 months ago by
ashiqullah024
• 0
3
votes
11
replies
1.6k
views
Trouble with Standalone Blast Tool (running for 2 hours and no output)
genome
fasta
blastx
blast
updated 3 months ago by
Mensur Dlakic
★ 30k • written 4 months ago by
pahurkar.arjun
• 0
0
votes
0
replies
586
views
Forum:
Seeking unique bioinformatics angle for wildlife-livestock AMR gut microbiome study (PhD proposal help)
antimicrobial-resistance
metagenomics
microbiome
amr
updated 6 weeks ago by
Ram
45k • written 4 months ago by
Saeed
• 0
0
votes
6
replies
963
views
Running Arriba on galaxy
Galaxy
4 months ago by
Abdelrahman
• 0
2
votes
4
replies
838
views
how to extract centromeric regions from human assemblies/FASTA
centromeres
FASTA
updated 3 months ago by
colindaven
8.1k • written 4 months ago by
Matteo Ungaro
▴ 140
0
votes
1
reply
563
views
Changes cgMLST type of Neisseria gonorrhoeae
cgMLST
Neisseria
gonorrhoeae
updated 4 months ago by
GenoMax
154k • written 4 months ago by
nahid.islam.zahid
• 0
0
votes
0
replies
423
views
Appropiate normalization method for OTU table built from MAGs abundances estimations?
MAG
normalization
OTUs
metagenomics
4 months ago by
v.berriosfarias
▴ 140
0
votes
1
reply
534
views
scRNA-seq annotation with Revsc
epithelialcells
intestinal
Revivalstemcell
updated 3 months ago by
Arup Ghosh
3.5k • written 4 months ago by
Farha
• 0
1
vote
3
replies
730
views
dbSNP: left-shift vs right-shift of indels
dbSNP
updated 4 months ago by
GenoMax
154k • written 4 months ago by
Matthew
▴ 10
1
vote
3
replies
635
views
duplicate reads in RNAseq datasets
RNAseq
R
updated 4 months ago by
dsull
★ 7.8k • written 4 months ago by
Bioinfonext
▴ 480
0
votes
0
replies
618
views
Tools to model DEG/pathways in (fast-dividing) CANCER cell lines across timepoints? (in bulk RNA-seq)
DEG
RNA-seq
bulk
4 months ago by
txema.heredia
▴ 280
10
votes
5
replies
7.2k
views
Combine a directory of GVCF files with gatk CombineGVCFs
gatk
combinegvcfs
gvcf
updated 4 months ago by
DareDevil
★ 4.5k • written 4.0 years ago by
michael.flower.14
▴ 210
0
votes
4
replies
1.0k
views
UMI introduction and deduplication with SMARTer-Seq
RNAseq
sequencing
UMI
RNA
updated 4 months ago by
i.sudbery
22k • written 4 months ago by
rayanelkholdi
• 0
0
votes
0
replies
918
views
News:
AI for Genomics: From CNNs and LSTMs to Transformers (Online, 9–11 September)
DeepLearning
LSTMs
AI
CNNs
MachineLearning
4 months ago by
Physalia-courses
★ 2.7k
1
vote
1
reply
591
views
AMRFinderPlus input fasta file for clinical isolates
AMRFinder
updated 4 months ago by
GenoMax
154k • written 4 months ago by
Adriana
• 0
0
votes
1
reply
510
views
Merged seurat objects, clustering problem, help please
harmony
seurat
clustering
scRNA
updated 4 months ago by
ATpoint
90k • written 4 months ago by
rmorabar
• 0
0
votes
4
replies
875
views
Linkage disequilibrium estimation in unphased data?
correlation
WES
Pearson
LD
Kendall
4 months ago by
Joel Wallenius
▴ 220
2
votes
6
replies
983
views
Why do Sox9 and Amh, which are Sertoli cell markers, show expression in the overall cell population?
analysis
scRNA-seq
4 months ago by
Bio
• 0
0
votes
1
reply
541
views
ONT bulk PCR cDNA protocol
bulk
ONT
PCR
adapter
UMI
updated 4 months ago by
GenoMax
154k • written 4 months ago by
Sowmya
• 0
8
votes
7
replies
2.1k
views
6 follow
Fungal Annotation Comparison
Annotation
RNAseq
Fungus
genome_assembly
funannotate
updated 4 months ago by
SanjidaR_NCBI
▴ 70 • written 6 months ago by
SomeOne
▴ 260
1
vote
3
replies
660
views
VCF Header malformation
update
Vcf
dictionary
mismache
header
updated 4 months ago by
Jeremy Leipzig
23k • written 4 months ago by
Mahdi&Christ
▴ 20
0
votes
0
replies
943
views
News:
Unlock the Power of Python for Biological Research: PYBD01
Python
updated 4 months ago by
GenoMax
154k • written 4 months ago by
oliverhooker
▴ 110
0
votes
6
replies
1.1k
views
STAR alignment to small fasta file failing
seq
STAR
alignment
RNA
4 months ago by
campbio
• 0
122,232 results • Page
14 of 2445
Recent Votes
Comment: Data integration single cell using Harmony
Answer: Feature Counts vs Salmon quantification
Answer: Chip-seq analysis Diffbind
Question about variant calling method using pangenome-graph
Comment: SyntaxError in file /snakefile, line 22: invalid decimal literal: None
Answer: Is this Rosalind inspired project actually useful?
Answer: Minimap2 segfaults when mapping Nanopore reads to a very large reference databas
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Comment: "sortmerna" quitting early--is this is a memory issue?
by
Andrew
• 0
Ok, here's the output: https://pastebin.com/uEHSckHS This run had the working directory in the default location, in sortmerna\run, but it …
Answer: Problems in Molecular Docking in Autodock vina
by
Anonsirs
• 0
Try to re run the command by first starting meeko and rdkit . to convert PDB files to PDQT files. It can help vina recognize the atom . a…
Comment: "sortmerna" quitting early--is this is a memory issue?
by
Andrew
• 0
Do you mean the maximum % RAM usage it reaches right before the moment it quits? As I said, the computer has 16 GB RAM, and the run fails w…
Comment: Chip-seq analysis Diffbind
by
Irene
▴ 10
Thank you very much for always answering my doubts and questions. I truly value and appreciate it because it helps me understand the result…
Comment: Minimap2 segfaults when mapping Nanopore reads to a very large reference databas
by
firefox91
▴ 10
Many thanks !
Answer: Re-assembling old RNA-seq reads vs. using an existing transcriptome assembly
by
GenoMax
154k
> I have access to both the raw reads and the previously assembled transcriptome submitted to TSA. and > I am trying to determine wheth…
Answer: Re-assembling old RNA-seq reads vs. using an existing transcriptome assembly
by
dthorbur
★ 3.2k
There are a few factors to consider: **The quality of the existing reference.** If there is a high quality chromosome level assembly,…
Comment: "sortmerna" quitting early--is this is a memory issue?
by
colindaven
8.1k
Pls add the output and your system (especially RAM), no one here can guess.
Answer: Power calculations for differentially methylated DNA samples from sequencing
by
colindaven
8.1k
There are software packages for power analysis such as https://academic.oup.com/bioinformaticsadvances/article/5/1/vbaf150/8173951.
Comment: Data integration single cell using Harmony
by
Arup Ghosh
3.5k
Run QC for each sample separately, then merge run SCTransform, PCA, then Harmony, UMAP, FindNeighbors and FindClusters.
Comment: Data integration single cell using Harmony
by
_deb
• 0
Thank you for the quick answer. I still have a doubt. It would be better to pre-process each sample separately (*filtering, SCTransform…
Comment: Issue while running Kenddata.
by
rana.elromh
• 0
I checked the memory before executing this command. I made a bash script on Ubuntu to run it on 15 folders. But, this problem happened in f…
Comment: Prokka output genes clusterization by function
by
Mensur Dlakic
★ 30k
Many proteins have multiple domains, and are correctly classified with multiple KO numbers. That's not a bug in `kofam_scan` but rather a r…
Comment: mapping sequences on specific region of bacteria genome
by
samuel.a.odonnell
▴ 650
If you want to visualise the mapping; take a look at using IGV. It just requires the genome you used to map the reads and the BAM output (n…
Comment: Prokka output genes clusterization by function
by
shevch2009
▴ 20
Thanks, I had completely forgotten that METABOLIC works with protein sequences. That will work :) I was just trying to figure out how peop…
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