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Showing :
CRISPRseek
•
reset
0
votes
1
reply
181
views
extendedSequences length is not the required for DeepCpf1 (34bp)
CRISPRseek
7 months ago
Miguel
• 0
0
votes
5
replies
1.4k
views
Error in data.frame(..., check.names = FALSE) : arguments imply differing number of rows
CRISPRseek
13 months ago • updated 12 months ago
Miguel
• 0
1
vote
2
replies
494
views
CRISPRseek package: offTargetAnalysis() error with mouse genome
CRISPRseek
14 months ago • updated 13 months ago
nderian
▴ 10
0
votes
2
replies
412
views
CRISPRseek package: findgRNAs error
CRISPRseek
14 months ago
nderian
▴ 10
4
votes
3
replies
518
views
Improving the run-time of offTargetAnalysis()
CRISPRseek
updated 20 months ago by
Daniel
• 0 • written 2.2 years ago by
xenon
▴ 40
0
votes
2
replies
413
views
CRISPRseek package: 5’ PAM?
CRISPRseek
21 months ago
nderian
▴ 10
2
votes
7
replies
1.9k
views
CRISPRseek Error in .Call2("solve_user_SEW0", start, end, width, PACKAGE = "IRanges") interpretation
CRISPRseek
2.2 years ago • updated 2.0 years ago
xenon
▴ 40
1
vote
1
reply
396
views
Using a DNAStringSet of guideRNA+PAM sequences in offTargetAnalysis()
CRISPRseek
updated 2.2 years ago by
Julie Zhu
★ 4.3k • written 2.2 years ago by
xenon
▴ 40
4
votes
1
reply
492
views
CRISPRSeek Results files column interpretation
CRISPRseek
updated 2.2 years ago by
Julie Zhu
★ 4.3k • written 2.2 years ago by
xenon
▴ 40
0
votes
1
reply
387
views
CRISPRseek base editor
CRISPRseek
updated 2.3 years ago by
Julie Zhu
★ 4.3k • written 2.3 years ago by
s.islambey
• 0
6
votes
14
replies
1.1k
views
gRNAefficacy calculations in CRISPRseek
crisprseek
crispr
gRNAefficacy
grna
updated 2.4 years ago by
Julie Zhu
★ 4.3k • written 2.4 years ago by
Dawid G. Nowak
▴ 40
3
votes
10
replies
879
views
CRISPRseek OffTargetAnalysis Warning: Error in Hash and NAs introduced by coercion
CRISPRseek
Error in hash
NAs introduced by coercion
updated 2.6 years ago by
Julie Zhu
★ 4.3k • written 2.6 years ago by
nils.hassel
• 0
0
votes
2
replies
377
views
gRNA design for prime editing using CRISPRseek
CRISPRseek
pegRNA
prime editing gRNA
updated 2.7 years ago by
Julie Zhu
★ 4.3k • written 2.7 years ago by
giti_gazisoltani
• 0
0
votes
5
replies
669
views
CRISPRseek help to generate gRNAs for CRISPRi library
CRISPRseek
updated 3.2 years ago by
Julie Zhu
★ 4.3k • written 3.2 years ago by
Lucka387
• 0
0
votes
1
reply
543
views
CRISPRseek - adding CRISPRscan score
CRISPRseek
updated 3.2 years ago by
Julie Zhu
★ 4.3k • written 3.2 years ago by
ptgriffin
• 0
6
votes
12
replies
1.0k
views
CRISPRseek ERROR, can't read featureWeightMatrix in, wrong data format
CRISPRseek
software error
3.2 years ago
nils.hassel
• 0
0
votes
4
replies
608
views
CRISPRseek:::findgRNAs paired gRNAs with PAM inward orientation
CRISPRseek
paired gRNA
updated 3.6 years ago by
Julie Zhu
★ 4.3k • written 3.6 years ago by
saba.parvez
• 0
0
votes
2
replies
2.0k
views
CRISPRseek question on scoring
CRISPRseek
8.5 years ago • updated 3.9 years ago
Julie Zhu
★ 4.3k
1
vote
1
reply
516
views
CRISPRSeek module output - summary file: topN.offtargettotalscore
CRISPRSeek
updated 3.9 years ago by
Julie Zhu
★ 4.3k • written 3.9 years ago by
Nan
• 0
5
votes
11
replies
772
views
CRISPRseek Unusual Error
crisprseek
updated 3.9 years ago by
Julie Zhu
★ 4.3k • written 4.0 years ago by
Dawid G. Nowak
▴ 40
0
votes
2
replies
903
views
Problem installing CRISPRseek
crisprseek
updated 4.3 years ago by
Julie Zhu
★ 4.3k • written 4.3 years ago by
ldumas9
• 0
0
votes
1
reply
610
views
CRISPRseek: offTargetAnalysis -> buildFeatureVectorForScoring increase max.mismatch error
crisprseek
offtargetanalysis
updated 4.5 years ago by
Julie Zhu
★ 4.3k • written 4.5 years ago by
jacob.bradford
• 0
1
vote
2
replies
602
views
A unexpected error occurred when using CRISPRseek package
crisprseek
updated 4.6 years ago by
Julie Zhu
★ 4.3k • written 4.6 years ago by
prokaryote23
• 0
1
vote
2
replies
587
views
How to understand Summary.xls in output of CRISPRseek
crisprseek
updated 4.6 years ago by
Julie Zhu
★ 4.3k • written 4.6 years ago by
Ou, Jianhong
★ 1.3k
4
votes
12
replies
1.0k
views
CFDscore calculations used in CRISPRseek
crisprseek
CFDscore
updated 4.6 years ago by
Julie Zhu
★ 4.3k • written 4.6 years ago by
Dawid G. Nowak
▴ 40
0
votes
5
replies
838
views
CRISPRseek offTargetAnalysis errors
CRISPRseek
5.0 years ago
joyce
• 0
0
votes
0
replies
1.1k
views
replacement has X rows, data has Y rows
crisprseek
5.1 years ago
robert_w_link
• 0
0
votes
1
reply
680
views
CRISPRseek offTargetAnalysis error
crisprseek
updated 5.1 years ago by
Julie Zhu
★ 4.3k • written 5.1 years ago by
joyce
• 0
0
votes
1
reply
839
views
CRISPRseek gRNA efficacy
crisprseek
updated 5.2 years ago by
Julie Zhu
★ 4.3k • written 5.2 years ago by
joyce
• 0
0
votes
2
replies
599
views
Does CRISPRSEEK work on previously unknown genomes?
crisprseek
unknown genome
updated 5.3 years ago by
Julie Zhu
★ 4.3k • written 5.3 years ago by
yhuang2
• 0
0
votes
6
replies
1.1k
views
CRISPRseek CFD score
crisprseek
updated 5.3 years ago by
Julie Zhu
★ 4.3k • written 5.3 years ago by
joyce
• 0
0
votes
1
reply
765
views
could not find function "hash"
crisprseek
updated 5.3 years ago by
Julie Zhu
★ 4.3k • written 5.3 years ago by
joyce
• 0
5
votes
24
replies
2.3k
views
CRISPRseek scoring clarification
crisprseek
updated 5.3 years ago by
Julie Zhu
★ 4.3k • written 5.9 years ago by
elspeth.ransom
• 0
0
votes
1
reply
633
views
CFD scores for searchHits?
crisprseek
updated 5.3 years ago by
Julie Zhu
★ 4.3k • written 5.3 years ago by
joyce
• 0
0
votes
0
replies
631
views
Interpretation of Score vs gRNA efficacy
crisprseek
5.4 years ago
robert_w_link
• 0
0
votes
0
replies
861
views
Off Target region
offtarget analysis
crisprseek
5.4 years ago
susobhanbaidya
• 0
0
votes
1
reply
1.1k
views
Compareequence function is not running
software error
compilation error
CRISPRseek
updated 5.4 years ago by
daniel.vantwisk
▴ 50 • written 5.4 years ago by
susobhanbaidya
• 0
0
votes
2
replies
901
views
"NNG[A|G][A|G]N$" in CRISPRseek code
crisprseek
SaCas9
PAM
5.5 years ago
bhanson1806
• 0
2
votes
3
replies
1.3k
views
offTargetAnalysis() Error in weights %*% mismatch.pos : non-conformable arguments (CRISPRSeek)
CRISPRseek
updated 5.5 years ago by
Julie Zhu
★ 4.3k • written 5.5 years ago by
robert_w_link
• 0
0
votes
1
reply
707
views
CRISPRseek How to get a correct result of searchHits2 ?
crisprseek
graph
updated 5.5 years ago by
Julie Zhu
★ 4.3k • written 5.5 years ago by
liuyue235
• 0
1
vote
8
replies
1.2k
views
CRISPRseek with genome not available in BSgenome
bsgenome
crisprseek
updated 5.6 years ago by
Julie Zhu
★ 4.3k • written 5.9 years ago by
millepattes.intersites
• 0
0
votes
3
replies
798
views
CRISPRseek with Doench 2016 scores
crisprseek
updated 5.6 years ago by
Julie Zhu
★ 4.3k • written 5.6 years ago by
pavitrarc
▴ 20
0
votes
1
reply
714
views
tilling sgRNA library design
bioconductor
crisprseek
updated 5.8 years ago by
Julie Zhu
★ 4.3k • written 5.8 years ago by
renxj2008
• 0
0
votes
6
replies
934
views
CRISPRseed gRNA.pattern is not producing expected result
crisprseek
updated 5.9 years ago by
Julie Zhu
★ 4.3k • written 5.9 years ago by
prp291
• 0
0
votes
5
replies
1.0k
views
CRISPRseek prediction of truncated Nme sgRNA and getting error message
crisprseek
updated 5.9 years ago by
Julie Zhu
★ 4.3k • written 5.9 years ago by
Daniel
• 0
0
votes
38
replies
2.0k
views
running off target analaysis
crisprseek
5.9 years ago
Yap-JM
• 0
0
votes
2
replies
741
views
CRISPRseek offTargetAnalysis score
bioconductor
crisprseek
offtarget analysis
6.3 years ago
Marie
• 0
0
votes
3
replies
828
views
CRISPRseek Ouput File Name
CRISPRseek
OutputFileName
updated 6.3 years ago by
Julie Zhu
★ 4.3k • written 6.3 years ago by
bhanson1806
• 0
0
votes
1
reply
827
views
Help with CRISPRseek inputFilePath
CRISPRseek
input files
updated 6.3 years ago by
Julie Zhu
★ 4.3k • written 6.3 years ago by
bhanson1806
• 0
3
votes
2
replies
893
views
CRISPRseek with (rough) Draft Genome
crisprseek
grna searching
bsgenome forge
offtarget analysis
updated 6.6 years ago by
Hervé Pagès
16k • written 6.6 years ago by
rajewski23
• 0
50 results • Page
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Replies
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
k.roelfs
• 0
I felt that my way of analyzing this data set was a bit unfortunate. I was not involved in the experimental design myself and am now trying…
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
k.roelfs
• 0
For tissue T1 and each time point, each replicate corresponds to a single plant. For tissue T2, we actually had to sample 5 plants per rep…
Answer: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
Gordon Smyth
47k
> Due to the high degree of heterozygosity of the plants used for the experiment, we thought it best to pool the same tissue under the same…
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
Gordon Smyth
47k
How many plants are used for each of the biological replicate samples? One plant or a few?
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
k.roelfs
• 0
Yes you are right, we have 24 RNA-seq libraries in total. The replicates come from the same population of plants, but independent from tho…
Votes
on which data type limma::removeBatchEffect can be applyed?
How can I draw a barplot of complexheatmap according 'Tumor Type'
on which data type limma::removeBatchEffect can be applyed?
DESeq2 pairwise comparisons w/ 3 factors
A: DESeq2 pairwise comparisons w/ 3 factors
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