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4,203 results • Page
1 of 85
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Filtering for tag:
assembly
•
reset
2
votes
2
replies
546
views
Recombination maps for cattle
SNP
IMPUTE2
genome
Assembly
updated 15 hours ago by
Azwan
• 0 • written 18 months ago by
mdyogolos
▴ 10
1
vote
2
replies
83
views
Taxonomy assignment of viral RNA
assembly
taxa
metagenomics
1 day ago by
biobiu
▴ 120
1
vote
5
replies
766
views
Efficient way to perform fastq filtering of contaminants by read name prior to transcriptome assembly?
trinity
BBmap
transcriptome
filtering
assembly
updated 4 days ago by
GenoMax
99k • written 5 days ago by
jfaberha
▴ 10
0
votes
0
replies
41
views
Canu possibly idling in the "meryl" step
canu
meryl
assembly
genomics
kmer
6 days ago by
Macspider
★ 3.4k
5
votes
4
replies
146
views
Complete of Illumina raw reads
assembly
illumina
6 days ago by
Audrey
▴ 50
3
votes
1
reply
94
views
How to download specific genomes
comparative
ncbi
genomes
genomics
assembly
updated 7 days ago by
GenoMax
99k • written 7 days ago by
vm.higareda
▴ 20
3
votes
7
replies
427
views
7 follow
Annotation of non model fish (mahi mahi) genome
Assembly
Annotation
updated 7 days ago by
Juke34
★ 5.3k • written 9 months ago by
kspata
▴ 70
3
votes
2
replies
135
views
What does BP stand for? | Reads and Assemblies
assembly
read
Macrogenomics
noob
8 days ago by
Daniel Bell
▴ 10
0
votes
6
replies
267
views
Dealing with chimeric assembly contigs
comperative-genomics
assembly
chimera-contig
updated 6 days ago by
samuel.a.odonnell
▴ 120 • written 11 days ago by
langziv
• 0
0
votes
0
replies
53
views
Merging Output from Trinity and Go analysis
transcriptome
merge
assembly
11 days ago by
dimitrischat
▴ 140
0
votes
1
reply
95
views
bbcms vs bbnorm when working with highly uneven coverage
BBTools
Metagenomics
Megahit
Assembly
BBNorm
updated 11 days ago by
GenoMax
99k • written 11 days ago by
samlambrechts299
▴ 150
4
votes
2
replies
118
views
Finding genes under positive selection in non-model species - Phylotranscriptomics approach ?
rna_seq
gene
assembly
ortholog
12 days ago by
sunnykevin97
▴ 320
10
votes
3
replies
174
views
Blast hits output to fasta format ?
alignment
assembly
blast
updated 13 days ago by
5heikki
9.6k • written 13 days ago by
sunnykevin97
▴ 320
1
vote
4
replies
215
views
BLAST results shows partial matches
blast
BLAST
assembly
11 days ago by
langziv
• 0
4
votes
3
replies
362
views
K-mer usage in metagenome assemblies
Assembly
metagenomics
k-mer
11 days ago by
v.berriosfarias
▴ 10
0
votes
1
reply
2.0k
views
Regarding valid transcript and Transdecoder output
sequencing
Transdecoder
transcript
assembly
updated 15 days ago by
ponganta
▴ 170 • written 4.9 years ago by
seta
★ 1.5k
7
votes
11
replies
521
views
blastn error - NCBI C++ Exception
assembly
blast
alignment
updated 12 days ago by
lieven.sterck
10k • written 16 days ago by
sunnykevin97
▴ 320
10
votes
14
replies
5.4k
views
STAR alignment command.
RNA-Seq
alignment
sequence
assembly
rna-seq
updated 19 days ago by
dare_devil
★ 1.4k • written 2.8 years ago by
amitunited0532
▴ 40
2
votes
6
replies
378
views
How to find orthologus sequences between the different species of non-model organisms?
RNA-Seq
Transcript
Assembly
ORF
15 days ago by
sunnykevin97
▴ 320
0
votes
2
replies
236
views
Concatenating fastq files for better assembly
genomics
assembly
sequencing
RNA-Seq
19 days ago by
shail.nair05
▴ 10
1
vote
2
replies
188
views
How to get raw read counts of genes/cds/transcripts from SAM/BAM file?
RNA-Seq
alignment
gene
sequencing
assembly
22 days ago by
shail.nair05
▴ 10
0
votes
5
replies
415
views
I am scaffolding using HiC data and found many contigs are out of the chromosome. Please help me.
sequencing
assembly
updated 21 days ago by
Michael Dondrup
48k • written 23 days ago by
tengwen2018
• 0
7
votes
9
replies
201
views
6 follow
Bioinformatics research work
genome
snp
assembly
updated 23 days ago by
Michael Dondrup
48k • written 24 days ago by
sa2020ad1
• 0
0
votes
1
reply
101
views
How to convert plink data from 38th assembly to 37
assembly
SNP
plink
liftOver
genome
25 days ago by
eyb
▴ 210
0
votes
1
reply
90
views
Generate consensus from contig alignment to reference sequence
Assembly
alignment
25 days ago by
daewowo
• 0
4
votes
7
replies
158
views
not able to run Deseq 2
RNA-Seq
alignment
sequence
assembly
updated 25 days ago by
GenoMax
99k • written 25 days ago by
ashwing.kofficial
• 0
0
votes
1
reply
94
views
Summarizing list of Genbank Assembly Accessions
assembly
gene
genome
alignment
updated 25 days ago by
GenoMax
99k • written 25 days ago by
fheller
• 0
0
votes
5
replies
836
views
bam2cfg.pl not able to find statistics : Breakdancer
gen
Assembly
software error
updated 25 days ago by
Biostar
20 • written 2.5 years ago by
sunnykevin97
▴ 320
3
votes
5
replies
112
views
PLINK:Error: Variant '.' is not biallelic. To obtain a full list of merge failures
SNP
Assembly
genome
next-gen
25 days ago by
williamsbrian5064
▴ 380
2
votes
3
replies
101
views
extract region.txt from bam file
alignment
Assembly
rna-seq
26 days ago by
madiha_shabbir46
▴ 10
3
votes
3
replies
198
views
installation of shovill on windows
software error
assembly
updated 19 days ago by
kapsakcj
▴ 80 • written 26 days ago by
ouchenerima571
• 0
0
votes
2
replies
112
views
How to perform Linkage Disequilibrium analysis for significantly associated K-mers?
next-gen
genome
snp
assembly
updated 27 days ago by
biostarter
• 0 • written 28 days ago by
anikcropscience
▴ 40
1
vote
5
replies
141
views
Read count using htseq-count.
RNA-Seq
gene
rna-seq
Assembly
Tutorial
27 days ago by
Saeed
• 0
2
votes
3
replies
214
views
RNASeq alignment visualisation
alignment
RNA-Seq
Assembly
27 days ago by
daewowo
• 0
0
votes
0
replies
93
views
Construct consensus from SE mRNA dataset
RNA-Seq
Assembly
28 days ago by
Emma
• 0
6
votes
4
replies
159
views
How to create a genome assembler?
Assembly
updated 29 days ago by
Mensur Dlakic
★ 10k • written 29 days ago by
alienzj
▴ 20
0
votes
2
replies
116
views
BBMap Clumpify: Exception in thread "Thread -#"
genome
Assembly
alignment
duplicate
updated 29 days ago by
Mensur Dlakic
★ 10k • written 4 weeks ago by
aman.akash2008
• 0
0
votes
1
reply
134
views
Blastx: FASTA-Reader: Ignoring invalid residues at position(s): On line 25975584
RNA-Seq
assembly
4 weeks ago by
nikhilshinde0909
• 0
0
votes
3
replies
169
views
structural variant discovery from highly mutated viral population using nanopore
Assembly
sequencing
nanopore
4 weeks ago by
rezaeir75
▴ 10
1
vote
3
replies
104
views
Mapping reads to contigs with BBMap - output statistics question (metagenome)
Assembly
alignment
Metagenome
4 weeks ago by
bioknown
• 0
0
votes
2
replies
104
views
Error in platanus: file format exception
assembly
4 weeks ago by
yamkelamgwatyu
• 0
1
vote
5
replies
308
views
what are the best metagenome assemblers?
assembly
updated 4 weeks ago by
956120746
• 0 • written 6 months ago by
Rubemsilva32
• 0
0
votes
0
replies
154
views
concatenate the human genome fasta file with the SARS-COV2 virus
RNA-Seq
genome
assembly
4 weeks ago by
FarnazTabrizi95
• 0
2
votes
1
reply
118
views
Prepare a GenBank submission: Can you turn this Perl script into a one-liner?
assembly
perl
code-golf
updated 4 weeks ago by
GenoMax
99k • written 4 weeks ago by
Michael Dondrup
48k
0
votes
0
replies
105
views
Why do my polysome and monosome-RNAs map to less exons?
RNA-Seq
sequencing
alignment
next-gen
Assembly
4 weeks ago by
joetaylor268
▴ 20
6
votes
23
replies
255
views
Removing Illumina PCR primer sequences from TSA for GenBank upload
GenBank
assembly
primer
4 weeks ago by
Michael Dondrup
48k
0
votes
0
replies
131
views
Job:
HIRING: Sequencing Specialist - UC Santa Cruz Genomcis Institute
RNA-Seq
genome
assembly
sequence
illumina
Job
4 weeks ago by
genomicshr
▴ 30
0
votes
0
replies
128
views
Discrepancy in structural variants results from mauve and MUM&Co
assembly
structural variants
mauve
MUMandCo
updated 4 weeks ago by
Biostar
20 • written 9 weeks ago by
rthapa
▴ 40
0
votes
4
replies
126
views
RepeatModeler:Input has potential formatting error
assembly
updated 4 weeks ago by
devarora
▴ 420 • written 4 weeks ago by
slin023
• 0
13
votes
7
replies
131
views
Remove uncharacterized chromosomes from reference fasta file
Assembly
genome
sequence
next-gen
updated 4 weeks ago by
rpolicastro
5.1k • written 4 weeks ago by
williamsbrian5064
▴ 380
4,203 results • Page
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Comment: What to put in my Github
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Comment: correlation analysis of a single variable versus multiple variables
by
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• 0
My gene of interest has been implicated in opposing functions. In some types of cancer, it is claimed to be protective, in others it seems …
Comment: Database/list of disease complications
by
GenoMax
99k
See: https://www.biostars.org/p/492845/
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BISEP
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@geneticatt I can get all bioloical process category not able to get to specific biological process like development I want to select only…
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Depending on contractual obligations (writing as an industry employee) sharing code can be a breach of confidentially agreements. Personall…
Answer: Is it possible to annotate a file for the human genome using the command line wi
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99k
As shown in the [**README**][1], `provean` should run on the command line. [Download][2] and follow install directions. This program requir…
Comment: correlation analysis of a single variable versus multiple variables
by
ATpoint
47k
> My results will be strong enough for a publication? If you plan to publish a few correlation tables for a single gene then the answer is…
Comment: Converting Braker2 gtf output to gff then genbank
by
robert.murphy
▴ 40
Oh it is simply whether the DNA is circular or linear, I thought it was something more complicated like chromatin organisation! Thank you.
Comment: Does GISAID fasta files contain spike protein or whole genome sequence?
by
Devon Ryan
98k
Why not look at the file and find out? You have the sequences, figure it out.
Comment: Converting Braker2 gtf output to gff then genbank
by
Juke34
★ 5.3k
You can get some information calling the EMBLmyGFF3 adanced help: ``` EMBLmyGFF3 --advanced_help topology ``` Otherwise you can find verbo…
Comment: Converting Braker2 gtf output to gff then genbank
by
robert.murphy
▴ 40
In `EMBLmyGFF3` script should I concern myself much with the `topology` option? If yes do you have suggestions for good places to educate (…
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by
German.M.Demidov
★ 2.0k
NIIPT can be performed in various variations and for different purposes. Is it chromosome abnormalities test in your case? If so, extreme G…
Comment: bedops wig2bed 'Row begins with a tab or space' error
by
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• 0
The output looks as follows: 1^I0^I3000060^I0.000000$ 1^I3000060^I3000090^I0.224911$ 1^I3000090^I3000120^I0.449820$ 1^I30…
Comment: Samtools view filter by reference sequence
by
maxrwjones898
• 0
Thanks for your answer, I will give this a go!
Answer: Variant calling from comparison of assembled genomes where there is only one r
by
Hans
▴ 120
It appears that bcftools takes into consideration the alignments of all genotypes when it calls variants. When I call the variants separat…
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