Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : this month
all time
today
this week
this month
this year
751 results • Page
1 of 16
Sort: replies
Rank
Views
Votes
Replies
8
votes
25
replies
1.9k
views
construction of a database
sql
noSQL
neo4j
database
updated 1 day ago by
Ram
38k • written 22 months ago by
Debut
▴ 20
0
votes
16
replies
1.4k
views
How to convert ncbi gff file to ensembl gff format
bcftools
gff
updated 21 hours ago by
Ram
38k • written 6 months ago by
yoser4
▴ 10
0
votes
13
replies
645
views
Use bcftools isec to find denovo mutations
mutations
denovo
updated 29 days ago by
Ram
38k • written 4 weeks ago by
anasjamshed
▴ 120
6
votes
13
replies
603
views
Error with STAR
STAR
updated 12 days ago by
Ram
38k • written 15 days ago by
Chris
▴ 70
6
votes
12
replies
1.2k
views
VCF files 101 - for people from non Bioinformatics Background
vcf
sequencing
genome
variant-calling
updated 8 days ago by
Ram
38k • written 2.6 years ago by
akshaykum684
▴ 20
6
votes
12
replies
1.1k
views
Good tutorials/textbooks/articles to introduce biomarker discovery to a biologist?
r
biomarker
updated 4 days ago by
Ram
38k • written 4.2 years ago by
english.server
▴ 290
8
votes
12
replies
2.4k
views
Use BLAST Command Line Applications to run a folder of many sequences against a database
BLAST
updated 4 days ago by
Ram
38k • written 19 months ago by
daver.v
▴ 30
5
votes
11
replies
3.0k
views
Convert Plink to Arlequin
software-error
plink
Arlequin
PGDSpider
updated 7 days ago by
Ram
38k • written 4.9 years ago by
HG
▴ 30
6
votes
11
replies
686
views
Calculate RPKM
RPKM
1 day ago by
Chris
▴ 70
2
votes
10
replies
1.2k
views
multiple FASTA sequnces in to one full sequnce according to their chromosome number
NGS
FASTA
bam
updated 4 days ago by
Ram
38k • written 4.0 years ago by
Anu
• 0
7
votes
10
replies
1.1k
views
col as names [solved]
R
updated 4 days ago by
Ram
38k • written 4.0 years ago by
demoraesdiogo2017
▴ 90
0
votes
10
replies
6.6k
views
Error: reads file does not look like a fastq file
fastq
bowtie2
ChIP-Seq
updated 4 days ago by
Ram
38k • written 6.5 years ago by
addilynn.beach
▴ 40
2
votes
10
replies
5.9k
views
fq.gz file use
BioEdit
R
updated 4 days ago by
Ram
38k • written 4.1 years ago by
choi.yisoo.hi
• 0
1
vote
9
replies
2.6k
views
bam to fasta error using samtools
fasta
bam
updated 4 days ago by
Ram
38k • written 6.0 years ago by
christacaggiano
▴ 60
0
votes
9
replies
2.9k
views
MATLAB Volcano Plot
Microarray
r
RNA-Seq
genome
updated 7 days ago by
Ram
38k • written 5.0 years ago by
bikash2510
▴ 30
0
votes
9
replies
1.5k
views
Microarray analysis in R - target.txt,file,Sample info
R
updated 1 hour ago by
Ram
38k • written 18 months ago by
bioinformatics
▴ 10
6
votes
9
replies
4.7k
views
Best Possible set of Python interview questions for Bioinformatics, that a recruiter can ask?
python
updated 1 day ago by
Ram
38k • written 7.9 years ago by
gaurav.singh
▴ 10
2
votes
8
replies
478
views
Depth of Coverage in Mitochondrial Genome with Samtools
samtools
depth-of-coverage
Mitochondrial-genome
3 days ago by
Lida
• 0
1
vote
8
replies
1.7k
views
What is NCBI Gene ID, where to find it and how to convert to entrez ID?
RNA-Seq
updated 7 days ago by
Ram
38k • written 3.5 years ago by
mnazir
• 0
1
vote
8
replies
372
views
Merge vcfs and retain only specific regions
SNPs
vcf
updated 13 days ago by
Ram
38k • written 14 days ago by
Clovering
▴ 30
0
votes
8
replies
5.0k
views
miRNA annotation from miRBase 21
miRBase
gene-annotation
next-gen
updated 13 days ago by
Ram
38k • written 8.5 years ago by
bioinforupesh2009.au
▴ 140
1
vote
8
replies
1.2k
views
Loading a pre-filtered loom file into pySCENIC
scRNA-seq
pySCENIC
loom
updated 21 hours ago by
Ram
38k • written 7 months ago by
Jacob
• 0
4
votes
8
replies
1.3k
views
6 follow
building snpEff database
snpEff
updated 29 days ago by
Ram
38k • written 10 months ago by
aabhordia
▴ 20
0
votes
8
replies
2.0k
views
Synthetic Human Single Cell Data For Phylogenetic Analysis
phylogenetics
updated 26 days ago by
Ram
38k • written 10.3 years ago by
satish.nair
• 0
2
votes
7
replies
445
views
RDS file in Rstudio
data
R
RDS
updated 28 days ago by
antonioggsousa
2.8k • written 29 days ago by
windsur
▴ 20
0
votes
7
replies
1.1k
views
Unable to convert from sam to bam file.
bam
sam
samtools
updated 18 hours ago by
Ram
38k • written 14 months ago by
usef
• 0
0
votes
7
replies
681
views
VQSR first step do not generating plots
WGS
WES
VQSR
28 days ago by
Yoosef
▴ 50
1
vote
7
replies
2.1k
views
How to increase the speed of miRanda target prediction program?
miranada
mirna
parallel
updated 21 days ago by
kuttibiotech2009
▴ 30 • written 5.4 years ago by
lakhujanivijay
5.7k
1
vote
7
replies
1.2k
views
miRDeep2.pl cannot recognize reference fasta file
mirdeep2
fasta
mirna
mirdeep2.pl
mirna-sequencing
updated 4 days ago by
Ram
38k • written 3.0 years ago by
realnewbie
▴ 30
1
vote
7
replies
2.0k
views
Kallisto | bustools workflow for fastq with R1 and R2 (forward and reverse)?
scRNA-seq
Kallisto
bustools
updated 8 days ago by
Ram
38k • written 3.5 years ago by
Farah
▴ 80
1
vote
7
replies
946
views
Changing gene headers in .sqn file for genome upload NCBI
NCBI
sqn
UNIX
updated 4 days ago by
Ram
38k • written 2.8 years ago by
T_18
▴ 40
1
vote
7
replies
1.7k
views
Platypus variantcaller.c:16971 errpr
platypus
updated 1 day ago by
Ram
38k • written 4.2 years ago by
nuketbilgen
▴ 40
2
votes
7
replies
7.7k
views
linux 'cat' command merge fasta files without headers
fasta
linux
updated 15 days ago by
Ram
38k • written 8.8 years ago by
esterbuiate
• 0
0
votes
7
replies
380
views
snpEff error when connecting to my built database
snpEff
14 days ago by
doggie
• 0
4
votes
7
replies
2.0k
views
How to move the files from sub folder and sub-sub folders into one other folder?
bash
updated 1 minute ago by
Ram
38k • written 20 months ago by
mathavanbioinfo
▴ 70
1
vote
7
replies
495
views
Wildcard error in Snakemake - clarification on inputs
python
Snakemake
variant-calling
17 days ago by
DdogBoss
• 0
1
vote
7
replies
1.1k
views
From a gene list to pathways
RNA-Seq
gene
updated 8 days ago by
Ram
38k • written 3.0 years ago by
eleonora.vercesi
• 0
6
votes
7
replies
825
views
to mark the duplicates
Assembly
updated 8 days ago by
Ram
38k • written 3.8 years ago by
manubiomed20
▴ 10
2
votes
7
replies
766
views
Import data for igraph using R
r
igraph
updated 19 hours ago by
Ram
38k • written 12 months ago by
kaisakaiho73847
• 0
1
vote
7
replies
244
views
error bbduk
linux
bbduk
java
updated 7 days ago by
lieven.sterck
14k • written 7 days ago by
Kárita
• 0
3
votes
6
replies
111
views
getting coding exon information from Ensembl API
API
Esembl
updated 13 minutes ago by
Ram
38k • written 4 hours ago by
Sarah
▴ 30
3
votes
6
replies
1.7k
views
Methods and type datastructures use by Splign?
data-structure
splign
updated 1 day ago by
Ram
38k • written 6.4 years ago by
Esaie
▴ 160
6
votes
6
replies
907
views
RNA-seq pipeline for degraded RNA
RNA-Seq
degraded
pipeline
alignment
updated 16 days ago by
yussab
▴ 80 • written 2.1 years ago by
oludhe
▴ 60
1
vote
6
replies
1.0k
views
gff file
GFF
UNIPRTOT
updated 1 hour ago by
Ram
38k • written 18 months ago by
devhimd
▴ 10
5
votes
6
replies
593
views
Filter out Bam not overlapping with Bed File (keeping a read and its mate)?
mates
bed
bam
samtools
8 days ago by
Eliveri
▴ 320
0
votes
6
replies
663
views
ceres score in crispr screen
ceres
crispr
ngs
updated 27 days ago by
Ram
38k • written 6 weeks ago by
edus_bioinfo
▴ 20
0
votes
6
replies
441
views
Recreating a SPAdes Assembly
fasta
SPAdes
Assembly
BAM
updated 4 days ago by
Ram
38k • written 4 weeks ago by
Rene
• 0
0
votes
6
replies
1.2k
views
CNVKit for unmatched tumor-only WGS samples
cnvkit
updated 7 days ago by
rohitsatyam102
▴ 690 • written 2.2 years ago by
vctrm67
▴ 30
5
votes
6
replies
410
views
I can not allocate ram memory for WSL2
WSL2
8 days ago by
ailton
• 0
0
votes
6
replies
1.9k
views
Getting matrix of QDs from VCF file
vcf
snp
updated 14 days ago by
wlei091226
• 0 • written 6.4 years ago by
Jautis
▴ 510
751 results • Page
1 of 16
Recent Votes
Comment: getting coding exon information from Ensembl API
C: How to install TMAP
If there is a way to link two gosling html components in two <div>s.
A: Using GATK's HaplotypeCaller or Mutect2 for somatic cancer samples with no norma
Comment: KM Plot for gene of interest (e.g. TP53) using TCGA-PAAD dataset
Comment: How can I easily remove overlapping transcripts, keeping only longest transcript
Comment: Where do find virulence gene information in a gff/gtf file?
Recent Locations •
All
United States,
just now
Barcelona, Spain,
just now
Cambridge, MA,
just now
United States,
1 minute ago
Seattle, WA USA,
1 minute ago
France/Nantes/Institut du Thorax - INSERM UMR1087,
2 minutes ago
Germany,
2 minutes ago
Recent Awards •
All
Popular Question
to
Manav
• 0
Scholar
to
Trivas
▴ 680
Scholar
to
Christian
▴ 20
Scholar
to
GenoMax
127k
Popular Question
to
Omics data mining
▴ 210
Commentator
to
Pierre Lindenbaum
153k
Commentator
to
benformatics
3.5k
Recent Replies
Comment: How can I easily remove overlapping transcripts, keeping only longest transcript
by
Juke34
7.7k
Don't use `--merge_loci` in your command line this was for AGAT version <1.0.0 (and only few scripts), now this is handled via the config.y…
Comment: getting coding exon information from Ensembl API
by
Ram
38k
> Because you just answer No we don't. I think you're confusing this professional forum contributed to by volunteers with a customer suppo…
Comment: Can I use abundance from Tximport to compare the expression level of transcript
by
Ram
38k
Oh, you can just use TPM to do that. Within sample comparison is a completely different (and much easier) game.
Comment: ClusterProfiler enrichKEGG – remove organism name in plots?
by
Sian
• 0
Unfortunately yes, there does seem to be a problem with using the older version - when I came to do more analysis yesterday, the enrichKEGG…
Comment: getting coding exon information from Ensembl API
by
Sarah
▴ 30
Because you just answer when it's a stupid question or when I ask a lot of questions. This is for asking questions not for being judged by …
Comment: KM Plot for gene of interest (e.g. TP53) using TCGA-PAAD dataset
by
Manav
• 0
Thanks, tried working with the dataset and workflow. It worked.
Comment: How can I easily remove overlapping transcripts, keeping only longest transcript
by
BioinfoBee
• 0
@juke34 Thanks again. I changed the config.yaml *should overlapping loci (at CDS level) be merged in a single locus Only one gene is kept,…
Comment: Can I use abundance from Tximport to compare the expression level of transcript
by
aimanbarki
▴ 20
Thanks, I am not doing any differential. But, Can we say that 6th transcript is relatively more abundance in our sample than other transcri…
Comment: Java -xmx option does not limit memory usage in the ImputePipelinePlugin?
by
zrm22
▴ 30
It looks like the ImputePipelinePlugin for the minimap2 run does not use the numThreads Option but rather does the numThreadsOnMachine - 2 …
Comment: Can I use abundance from Tximport to compare the expression level of transcript
by
aimanbarki
▴ 20
@rob Please, Can you or people from your group answer . As I am using one of your paper as my [reference.][1] [1]: https://f1000rese…
Comment: fastq_screen error: Failed to calculate read length
by
firestar
★ 1.5k
I created the .fasta from a BAM, so I am just going to go back to the BAM and convert that to a .fastq and see if that works. But good to k…
Comment: Can I use abundance from Tximport to compare the expression level of transcript
by
Ram
38k
> I have only one condition There is no "differential" then. RNAseq is a relative measure, so comparing single-condition replicates using …
Comment: Can I use abundance from Tximport to compare the expression level of transcript
by
aimanbarki
▴ 20
[Salmon][1] is giving me TPM at transcript level. So, What I understand from that TPM is normalized for sequencing depth and Transcript l…
Answer: Does it possible to know what are the adjacent genes up to 1000bp upstream and
by
Alex Reynolds
34k
You could use `bedmap` from BEDOPS. Say you have a BED file of IS/transposable elements called `elements.bed` and a BED file of genes calle…
Comment: Java -xmx option does not limit memory usage in the ImputePipelinePlugin?
by
twrl8
• 0
Ahh thank you! I thought the xmx parameter would be passed to the downstream commands called by the plugin. Then I think I definitely need…
Traffic: 3137 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6