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126 results • Page
1 of 3
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0
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0
replies
10
views
Job:
Associate Professor, Ecology
Ecology
updated 30 minutes ago by
Ram
39k • written 1 hour ago by
jterakita
▴ 20
0
votes
0
replies
21
views
What does "OS_CNSR" and "PFS_CNSR" mean?
survival
cancer
r
updated 27 minutes ago by
Ram
39k • written 1 hour ago by
JACKY
▴ 100
0
votes
0
replies
11
views
CIBERSORT Error: File not found
CIBERSORT
1 hour ago by
jcara514
• 0
2
votes
2
replies
95
views
retaining only the clusters of interest
seurat
single-cell
scRna-seq
updated 2 hours ago by
Ram
39k • written 4 hours ago by
shamza
• 0
0
votes
2
replies
172
views
Diff Bind Questions
DiffBind
CHiP-Seq
updated 4 hours ago by
Ram
39k • written 1 day ago by
B.N.
• 0
0
votes
3
replies
116
views
Gviz Coverage Plots
gviz
scrnaseq
cellranger
r
updated 32 minutes ago by
Ram
39k • written 6 hours ago by
Researcher
• 0
6
votes
6
replies
243
views
Contigs to chromosomes annotation
Assembly
mapping
contigs
updated 4 hours ago by
GenoMax
129k • written 17 hours ago by
alexandru.bologa.marian
▴ 50
2
votes
2
replies
162
views
Gene prediction software
pseudogene
gene
prediction
masking
updated 8 hours ago by
Darked89
4.4k • written 16 hours ago by
subashini.fbtpb106
▴ 10
0
votes
4
replies
178
views
Limma returned only positive logFC values
edgeR
differential-expression
deg
limma
5 hours ago by
melissachua90
▴ 40
1
vote
0
replies
58
views
Alternative approach to rarefying in 16S rRNA analysis
16S
Rarefying
rRNA
9 hours ago by
zhangdengwei
▴ 190
0
votes
1
reply
73
views
phage genome submission in ncbi genebank
phage
table2asn
ncbi
updated 2 hours ago by
acvill
▴ 290 • written 9 hours ago by
tahsinkhan570
• 0
2
votes
3
replies
183
views
Same GEO Accession, different SRR number, how to download this RNA-seq paired-end data?
sra-toolkit
fastq
RNA-seq
SRA
updated 8 hours ago by
GenoMax
129k • written 10 hours ago by
ev97
• 0
0
votes
0
replies
72
views
Which is the minor allele in ped file in plink?
plink
updated 11 hours ago by
GenoMax
129k • written 11 hours ago by
khn
▴ 130
0
votes
2
replies
114
views
Correct way to remove Nextera adapters from ITS sequences
adapters
ITS
trimmomatic
1 hour ago by
mattze731
▴ 10
1
vote
1
reply
220
views
Assigned taxonomy after dada2 only "NAs" or "Mitochondria"
16S
dada2
DECIPHER
ITS
taxonomy
12 hours ago by
mattze731
▴ 10
0
votes
0
replies
70
views
What statistical test should I use to analyse my two set of transcriptomique data?
transcriptome
12 hours ago by
F.Bedjou
▴ 10
0
votes
0
replies
67
views
Tutorial:
How to start disease research quickly and easily?
proteins
pathways
disease
research-design
genes
13 hours ago by
Coremine Medical
▴ 10
2
votes
1
reply
121
views
Visualizing Graph Alignment Format via minigraph
graph
gaf
minigraph
alignment
updated 13 hours ago by
colindaven
4.9k • written 1 day ago by
ivazirabad
▴ 20
0
votes
2
replies
204
views
Stratified sample assignment for analysis
experimental-design
stratification
updated 13 hours ago by
ATpoint
72k • written 4 days ago by
fr
▴ 200
1
vote
2
replies
219
views
What kind of statistical test does Cellranger count use?
scRNAseq
10X
Single-Cell
updated 15 hours ago by
fracarb8
▴ 950 • written 1 day ago by
hannah
• 0
3
votes
7
replies
4.1k
views
Getting Pairwise Sequence Alignment Score With Biopython
biopython
alignment
clustalw
updated 12 hours ago by
Jonathan Lefebre
▴ 70 • written 11.5 years ago by
Lakshmi
• 0
0
votes
0
replies
56
views
Difference MITOS WebServer and MITOS 2 Webserver
MITOS2
WebServer
Difference
MITOS
15 hours ago by
hashim.rana11
▴ 20
2
votes
4
replies
227
views
Get relationships and hierarchies for GO terms
GO-terms
Gene-onthology
updated 14 hours ago by
Alexander
▴ 70 • written 1 day ago by
DanielEB_fisk
▴ 10
0
votes
0
replies
87
views
Integrate RDS files
integration
23 hours ago by
Andy
▴ 50
7
votes
6
replies
267
views
Italicise annotations with pheatmap
R
Pheatmap
updated 16 hours ago by
ATpoint
72k • written 1 day ago by
jamie.pike
▴ 80
0
votes
3
replies
180
views
Installation of PPFinder
gene-prediction
PPFinder
pseudogene
16 hours ago by
subashini.fbtpb106
▴ 10
0
votes
6
replies
288
views
Getting same value for start and end position, "DNA methylation"
DNAmethylation
methylkit
updated 16 hours ago by
ATpoint
72k • written 1 day ago by
Pankaj
• 0
2
votes
5
replies
372
views
How to calculate TPM from featureCounts output
rna-seq
TPM
featurecounts
updated 19 hours ago by
rfran010
▴ 140 • written 2 days ago by
survive
• 0
0
votes
6
replies
312
views
variant allelic fraction
vep
updated 8 hours ago by
Ram
39k • written 2 days ago by
Jom
• 0
4
votes
6
replies
323
views
calculate p value and associated z score for snp-gene pair
snp
association
gene
pvalue
7 minutes ago by
rheab1230
▴ 140
3
votes
5
replies
421
views
RNASeq gene labeling and mRNA filter from bulkRNA data.
RNA-Seq
RSubreads
updated 20 hours ago by
rfran010
▴ 140 • written 4 days ago by
Yeeshouw
• 0
0
votes
1
reply
174
views
Differential protein expression analysis
R
proteomic
statistics
updated 12 hours ago by
dsull
★ 4.2k • written 3 days ago by
Ribo
▴ 40
4
votes
6
replies
511
views
Help with running ATAC using Encode pipeline
encode
ATAC-seq
10 hours ago by
Chris
▴ 100
2
votes
2
replies
182
views
bioinformatic analysis protocol performed by CD Genomics
Genomics
analysis
CD
Protocol
updated 7 hours ago by
Ram
39k • written 5 days ago by
linnet.roque6
▴ 10
5
votes
7
replies
270
views
Alignment of case vs. control from different origin
Alignment
RNAseq
updated 13 hours ago by
i.sudbery
17k • written 6 days ago by
sativus
• 0
0
votes
2
replies
296
views
too many zeros in 16S rRNA amplicon sequencing data
16S
rRNA
9 hours ago by
zhangdengwei
▴ 190
3
votes
9
replies
676
views
Get protein information from ensemblbacteria using interpro
ensembl
updated 10 hours ago by
sgiorgetti
▴ 10 • written 21 days ago by
Ishanisignup32
• 0
0
votes
0
replies
283
views
News:
Bioinformatics courses in February
Genomics
Bioinformatics-Training
updated 7 hours ago by
Ram
39k • written 4 months ago by
carlopecoraro2
★ 2.3k
0
votes
0
replies
453
views
Job:
Senior Postdoctoral Research Scientist - Bioinformatics in Oxford
Oxford
postdoc
epigenetics
cancer
updated 7 hours ago by
Ram
39k • written 4 months ago by
olin0151
• 0
2
votes
2
replies
274
views
Changing the format of a column in a file
Linux
updated 7 hours ago by
Ram
39k • written 8 months ago by
munaj86
▴ 30
4
votes
8
replies
765
views
VEP tab/vcf - Different output
VEP
ensembl
updated 10 hours ago by
Ben_Ensembl
★ 2.2k • written 14 months ago by
Filago
▴ 90
0
votes
0
replies
366
views
How to compile Java files in bash?
Bash
Java
updated 7 hours ago by
Ram
39k • written 18 months ago by
ezraamustafa3
• 0
1
vote
0
replies
1.2k
views
Job:
PhD positions in Functional Genomics at Graz University of Technology (Austria) - Deadline coming soon!
Genomics
Epigenomics
transposons
ENCODE
updated 5 hours ago by
Ram
39k • written 3.4 years ago by
funcgen
▴ 10
7
votes
2
replies
637
views
Forum:
How to follow a particular post on Biostars?
meta
updated 8 hours ago by
Ram
39k • written 3.5 years ago by
natasha.sernova
★ 3.9k
0
votes
2
replies
1.6k
views
Job:
PostDoc position at Human Genome Sequencing Center @ Baylor College of Medicine, Houston, TX, USA
postdoc
updated 5 hours ago by
Ram
39k • written 3.4 years ago by
Medhat
9.6k
1
vote
0
replies
1.2k
views
Job:
PhD position in cancer systems biology (Budapest, Hungary)
budapest
transcriptomics
PhD
cancer
RNA-Seq
updated 5 hours ago by
Ram
39k • written 3.5 years ago by
endre.sebestyen
▴ 10
0
votes
2
replies
907
views
Job:
Bioinformatician Positions at the University of Chicago BSD Bioinformatics Core
ATAC-seq
proteomics
RNA-seq
microbiome
DNA-seq
updated 5 hours ago by
Ram
39k • written 3.4 years ago by
lhuang7
• 0
4
votes
0
replies
601
views
News:
Call for Bioinformatics Papers - Genes Special Issue
gene
updated 5 hours ago by
Ram
39k • written 3.4 years ago by
Federico Giorgi
▴ 700
1
vote
3
replies
596
views
What is the best approach to detect unknown recombinant gene in genome?
recombinant
sequencing
updated 5 hours ago by
Ram
39k • written 3.4 years ago by
Can Holyavkin
▴ 240
0
votes
0
replies
713
views
News:
Nextflow training course in Berlin
Pipeline
Nextflow
updated 5 hours ago by
Ram
39k • written 3.4 years ago by
carlopecoraro2
★ 2.3k
126 results • Page
1 of 3
Recent Votes
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C: Regarding filter primary alignment
Alternative approach to rarefying in 16S rRNA analysis
Answer: Gene prediction software
Comment: retaining only the clusters of interest
Comment: retaining only the clusters of interest
Calculating read abundances across MAGs (question)
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Recent Replies
Comment: calculate p value and associated z score for snp-gene pair
by
rheab1230
▴ 140
Thank you so much for the information.
Comment: Gviz Coverage Plots
by
Ram
39k
I understand that but stick to one place at least for a while and always link to other places you've posted (reasonable places, we don't ne…
Comment: Gviz Coverage Plots
by
Researcher
• 0
Sorry, I didn't know that posting it on another forum was rude but I really need help with this.
Comment: Correct way to remove Nextera adapters from ITS sequences
by
mattze731
▴ 10
Trimmomatic allows to enter custom adapter sequences, but I don't see how this would change the outcome. Similarly, trimmomatic also allows…
Comment: phage genome submission in ncbi genebank
by
acvill
▴ 290
When running prokka, did you call the `--compliant` parameter to enforce Genbank compliance? https://github.com/tseemann/prokka#ncbi-genban…
Comment: Correct way to remove Nextera adapters from ITS sequences
by
Trivas
★ 1.2k
Some of these programs have a minimum size threshold for a read to be retained. You could play around with that to keep all trimmed reads 5…
Comment: retaining only the clusters of interest
by
seidel
11k
Could it be that idents needs a character string instead of integers? Also, you have an extra comma in your call after c(0:16).
Comment: retaining only the clusters of interest
by
Ram
39k
`idents` is probably a factor so even though you've removed cells with those level values, the factor level still remains. Don't worry abou…
Comment: Contigs to chromosomes annotation
by
GenoMax
129k
I would still recommend using `minimap2` and aligning against reference. It should go pretty fast. You can either work with PAF (default) f…
Comment: Diff Bind Questions
by
Ram
39k
I've moved this to a comment as it does not directly answer OP's question.
Comment: Diff Bind Questions
by
Daniel
▴ 30
I'm very new myself and there's plenty of people who can answer your question better than I can, but here is a resource I found extremely h…
Comment: Contigs to chromosomes annotation
by
alexandru.bologa.marian
▴ 50
If the number of contigs was so small I would manually check each alignment and edit the header of each contig,inserting the corresponding …
Comment: Gviz Coverage Plots
by
Ram
39k
Do not post on multiple fora just because you want a fast response, it's plain rude. At least point to the other post so we know you're ask…
Comment: Limma returned only positive logFC values
by
melissachua90
▴ 40
No the library sizes across conditions should be relatively homogenous because it's from the same dataset. I clustered the samples into sub…
Comment: Limma returned only positive logFC values
by
LChart
2.6k
It shouldn't, unless there's a misspecification in design. Is it the case that the library sizes are very different between the conditions …
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