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118,811 results • Page
1 of 2377
Sort: Rank
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Votes
Replies
0
votes
0
replies
16
views
Best approach for identifying top proteins in a single cluster in single-cell analysis
ADT
CITEseq
Single-cell
Seurat
30 minutes ago by
singAsong
• 0
0
votes
0
replies
48
views
Merging Imputed VCF with Reference Panel VCF
VCF
GLIMPSE
Imputation
5 hours ago by
selplat21
▴ 20
3
votes
5
replies
326
views
Salmon quantification not as expected; "versionInfo.json doesn't seem to exist"
salmon
updated 2 days ago by
dsull
★ 6.8k • written 2 days ago by
Haad
• 0
0
votes
1
reply
71
views
Harmony integration of integarted samples
scRNA-seq
harmony
updated 7 hours ago by
jared.andrews07
★ 17k • written 7 hours ago by
fifty_fifty
▴ 70
819
votes
169
replies
154k
views
110 follow
News:
The Biostar Handbook. A bioinformatics e-book for beginners.
training
handbook
updated 2 days ago by
Biostar
3.0k • written 7.8 years ago by
Istvan Albert
101k
2
votes
2
replies
106
views
index sequence in fastq header
fastq
3 hours ago by
hpapoli
▴ 150
0
votes
2
replies
90
views
Build RG information for BWA
bwa
3 hours ago by
hpapoli
▴ 150
19
votes
18
replies
925
views
7 follow
Help Choosing a Workstation for a New Bioinformatics Service
NGS
hardware
workstation
updated 8 hours ago by
GenoMax
145k • written 8 days ago by
AresSanchz
• 0
0
votes
0
replies
62
views
spike-in-methods in 16s microbial analysis
16s
spike-in
microbiome
10 hours ago by
mrashad
▴ 80
0
votes
0
replies
64
views
Is this phasing result normal?
haplotyping
sequencing
phasing
nanopore
11 hours ago by
njornet
▴ 20
0
votes
0
replies
61
views
Selection Pressure Analysis
Selection-Pressure
ka-ks
updated 9 hours ago by
Ram
44k • written 13 hours ago by
zhu
• 0
1
vote
11
replies
690
views
KeepBothReads in Trimmomatic
Trimmomatic
PE-reads
updated 14 hours ago by
nagito
• 0 • written 14 days ago by
mariannapauletto
▴ 90
2
votes
2
replies
172
views
X chromosome in bedtoolsIntersect
bedtools
updated 14 hours ago by
Pierre Lindenbaum
163k • written 1 day ago by
wiscoyogi
▴ 40
0
votes
1
reply
253
views
est-sfs error
est-sfs
non-model-organism
ancestral-allele
updated 17 hours ago by
shanghonyu
• 0 • written 6 weeks ago by
Whirlingdaf
▴ 60
1
vote
8
replies
221
views
cellranger count error:
cellranger
19 hours ago by
CRISPYCC
• 0
0
votes
1
reply
137
views
Integration of paired and single-end SRA
Paired-end
Single-end
VCF
Resequencing
updated 1 day ago by
Brian Bushnell
20k • written 1 day ago by
reza
▴ 300
2
votes
1
reply
200
views
High inconsistency between edgeR and DESeq2
log-ratio
edgeR
GLM
DESeq2
updated 1 day ago by
bk11
★ 2.9k • written 1 day ago by
lyan125
▴ 10
0
votes
0
replies
90
views
how to make a recombination map using a family of a diploid bee "mom" and 5 haploid "sons"
sequencing
recombination-map
updated 1 day ago by
Ram
44k • written 1 day ago by
dovasuttner
• 0
2
votes
0
replies
131
views
Job:
Assistant, Associate, or Full Project Scientist in Cell & Developmental Biology UC San Diego
Biology
Academia
UCSD
1 day ago by
UCSDBioSci
▴ 30
0
votes
0
replies
96
views
Gene expression analysis of parents-infant with multiple tissue types
DGE
RNA-seq
DESeq2
Gene-Expression
updated 1 day ago by
Ram
44k • written 1 day ago by
saad.malik
• 0
5
votes
3
replies
436
views
Snakemake - Missing output files
Snakemake
updated 1 day ago by
Ram
44k • written 8 days ago by
am29
▴ 40
0
votes
6
replies
210
views
Best practice for gene ontology/pathway/geneset enrichment in 10x data
R
Seurat
scRNA
updated 1 day ago by
jared.andrews07
★ 17k • written 1 day ago by
yura.grabovska
▴ 430
0
votes
1
reply
135
views
Plink HWE QC question
HWE
Plink
p-value
updated 1 day ago by
bk11
★ 2.9k • written 1 day ago by
janny.lau
▴ 10
0
votes
0
replies
89
views
Can non-integer data be used as input for Monocle3?
pseudotime
scRNAseq
trajectory-analysis
Monocle3
updated 1 day ago by
Ram
44k • written 1 day ago by
annadv
• 0
2
votes
2
replies
144
views
multiple sequence alignmet
MSA
updated 1 day ago by
Mensur Dlakic
★ 28k • written 1 day ago by
harry
▴ 40
0
votes
3
replies
363
views
Help Analysing Perturb-Seq Data - How do I extract 10X cell barcodes and relevant guides from fastq files?
Single-Cell
Perturb-Seq
10X
updated 1 day ago by
yura.grabovska
▴ 430 • written 9 days ago by
jesswhitts
• 0
0
votes
2
replies
181
views
Different result by bowtie2
Bowtie2
updated 10 hours ago by
biofalconch
★ 1.2k • written 1 day ago by
daffodil
▴ 10
0
votes
0
replies
97
views
Strand inconsistency between Long read tool and minimap2?
minimap2
1 day ago by
shinyjj
▴ 50
0
votes
1
reply
1.3k
views
Problems with using Phobius
Phobius
fasta
sequence
updated 1 day ago by
Ram
44k • written 4.6 years ago by
logleg92029
• 0
2
votes
5
replies
251
views
Snakemake-Created Conda Environment Deactivation
Linux
workflow
conda
snakemake
updated 1 day ago by
hugo.avila
▴ 530 • written 1 day ago by
menyawino
• 0
0
votes
1
reply
187
views
Some questions about motif enrichment in Homer
motif-enrichment
methylation
DNA
1 day ago by
diqixiaoyaoer
▴ 20
0
votes
1
reply
135
views
Genomics Features Extraction (Promoter, 5'UTR, 3'UTR, Intergenic, exnoic, intronic etc)
genomics
biology
updated 1 day ago by
Ram
44k • written 1 day ago by
shabbas12
▴ 10
0
votes
0
replies
90
views
Cuffcompare annotation and class code
RNA-seq
cuffcompare
1 day ago by
ZZOYEA
▴ 20
0
votes
0
replies
88
views
Analyzing multiple microRNA sequencing GEO datasets at the same time
geo-database
RNA-seq
metavolcano
microRNA
updated 1 day ago by
Ram
44k • written 1 day ago by
Alana
• 0
1
vote
1
reply
278
views
How can you determine the mutation rate of mitochondrial DNA for your (Grasshopper) species?
pacBio
numts
mtDNA
Genomics
updated 1 day ago by
Brian Bushnell
20k • written 17 days ago by
hashim.rana11
▴ 40
0
votes
1
reply
428
views
Tandem Mass Tag (TMT) proteomics data analysis
tmt
tandem-mass-tag
proteomics
updated 1 day ago by
Ram
44k • written 2.6 years ago by
F
• 0
1
vote
1
reply
125
views
Conflict packages R
R
updated 1 day ago by
Ram
44k • written 1 day ago by
marco.barr
▴ 150
1
vote
4
replies
486
views
Trimmomatic or Cutadapt not Trimming my Adapters even though I see them clearly in the Fastq-File
rna-seq
cutadapt
trimmomatic
updated 1 day ago by
Brian Bushnell
20k • written 12 days ago by
obsto123
• 0
0
votes
5
replies
347
views
Understanding bedtools coverage for datasets with in-dels.
ONT
bedtools
mapping
reads
coverage
updated 1 day ago by
Brian Bushnell
20k • written 10 days ago by
Shakunthala Natarajan
• 0
1
vote
5
replies
1.2k
views
6 follow
De novo sequencing?
De-novo-sequencing
updated 1 day ago by
Ram
44k • written 6.8 years ago by
Abdul Rafay Khan
★ 1.2k
6
votes
10
replies
627
views
Find all sequences with adapters without trimming them off
cutadapt
fastq
updated 1 day ago by
Brian Bushnell
20k • written 7 days ago by
Freyda
▴ 10
10
votes
4
replies
351
views
Forum:
Awesome awesomeness bioinformatics
bioinformatics
Awesome
1 day ago by
Juke34
8.8k
0
votes
0
replies
105
views
Pangenome Construction
pangenome
chromosome
1 day ago by
bioinfo223
▴ 10
9
votes
9
replies
705
views
Interpreting phylogenetics tree
tree
itol
phylogenetics
1 day ago by
davidmaimoun
▴ 50
0
votes
0
replies
95
views
Plotting admixture output with circular barplot using membercoeff.circos
bitev2
membercoeff
admixture
1 day ago by
PKW
▴ 110
0
votes
1
reply
240
views
STAR aligner STAR: bgzf.c:158: bgzf_open: Assertion `compressBound(BGZF_BLOCK_SIZE) < BGZF_MAX_BLOCK_SIZE' failed.
STAR
aligner
bgzf
updated 1 day ago by
Ram
44k • written 1 day ago by
tedwinkent
• 0
0
votes
1
reply
256
views
Convert CRAM to BAM in pysam
python
pysam
BAM
CRAM
updated 2 days ago by
Brian Bushnell
20k • written 3 days ago by
sviatoslav.kendall
▴ 920
3
votes
12
replies
732
views
comparison between a selected genes of a new strain and the same genes of the reference genome
strain
genome
pipeline
1 day ago by
avinci1
▴ 10
0
votes
0
replies
113
views
Compensation for SSC-A/CD3-PerCP?
Compensation
FlowJo
2 days ago by
ysun
• 0
2
votes
3
replies
216
views
Looking for some guidance regarding motif ontology
ATAC-seq
motifs
HOMER
updated 1 day ago by
jared.andrews07
★ 17k • written 2 days ago by
Ronin
▴ 10
118,811 results • Page
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Recent Votes
Comment: Obtaining read group information from the Fastq file
Answer: index sequence in fastq header
Answer: index sequence in fastq header
Comment: Find all sequences with adapters without trimming them off
Assistant, Associate, or Full Project Scientist in Cell & Developmental Biology UC San Diego
Answer: Salmon quantification not as expected; "versionInfo.json doesn't seem to exist"
Comment: Salmon quantification not as expected; "versionInfo.json doesn't seem to exist"
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Recent Replies
Comment: index sequence in fastq header
by
hpapoli
▴ 150
This is great! Thanks very much! Each fastq file contains 1 sample and indeed, the difference is in 1 base. Thanks for explaining this very…
Comment: Build RG information for BWA
by
hpapoli
▴ 150
thanks very much! What about the ID and PU field? Is the PU field correct as it is written now? Thanks again!
Comment: Salmon quantification not as expected; "versionInfo.json doesn't seem to exist"
by
Haad
• 0
I resolved the issue by just making sure I had more disk space. There was nothing wrong with the script.
Answer: Harmony integration of integarted samples
by
jared.andrews07
★ 17k
You have two potential approaches. Just try each and see which seems to work better for your intended purpose. Generally, I just integrate …
Answer: index sequence in fastq header
by
GenoMax
145k
> My first question is whether my understanding is right? Yes. It is actually a pair of indexes (`+` separate the two indexes). This is a …
Answer: Build RG information for BWA
by
Pierre Lindenbaum
163k
PL:Illumina must be uppercase to be compatible with gatk tools. https://samtools.github.io/hts-specs/SAMv1.pdf ``` Platform/technology u…
Comment: Help Choosing a Workstation for a New Bioinformatics Service
by
GenoMax
145k
> I don’t want to request an $8K workstation that only lasts two months. The workstation will last a long while. Way after its useful life…
Comment: Different result by bowtie2
by
biofalconch
★ 1.2k
Just adding to this, it would be nice if your supervisor would use the `--seed` flag to obtain the same results.
Comment: Help Choosing a Workstation for a New Bioinformatics Service
by
AresSanchz
• 0
Thank you all so much for your responses. I know I don’t provide much information, but I really don’t have much more to share. These 79 gro…
Comment: Help Choosing a Workstation for a New Bioinformatics Service
by
AresSanchz
• 0
Thank you for the detailed advice, it’s really helpful! I’ll definitely look into maximizing memory and hard drive space and the fast-acce…
Comment: Help Choosing a Workstation for a New Bioinformatics Service
by
AresSanchz
• 0
Thanks for the suggestion. I'm not familiar with Ansible (i'm still a rookie), but I'll take a look and see if it could be a good option fo…
Comment: Help Choosing a Workstation for a New Bioinformatics Service
by
AresSanchz
• 0
Yes, it's EU-based, that's the thing. I'm trying to get access to the university servers, so I'm looking for a workstation to get started. …
Comment: Help Choosing a Workstation for a New Bioinformatics Service
by
AresSanchz
• 0
Hi! Yes, you read that right. But they want to start really slow, like beginning with just a few analyses for the few IPs that are in the s…
Comment: KeepBothReads in Trimmomatic
by
nagito
• 0
Thank you, I learned a lot
Comment: X chromosome in bedtoolsIntersect
by
Pierre Lindenbaum
163k
> Don't forget to follow up on your threads. If an answer was helpful, you should upvote it; if the answer resolved your question, you shou…
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