broadinstitute/Drop-seq

Issues

• no output

  #484 opened 2 months ago by akulan1
  12

• Questions on knee plot analysis and matrix construction

  #467 opened 3 months ago by bulahwu
  2

• Dropulation execution errors

  #422 opened 7 months ago by drneavin
  20

• ERROR: Could not find one and only one picard.jar in deployment.

  #450 opened 4 months ago by gabriella-quinn
  1

• Implement continuous integration for python code

  #446 opened 4 months ago by alecw
  0

• DonorAssignmentQC not emitting plotCommonDonorsFdrDistribution result

  #441 opened 5 months ago by jamesnemesh
  0

• A Feature to use gene ID instead of gene names

  #439 opened 5 months ago by WellSIM
  1

• Errors that occur with create_Drop-seq_reference_metadata.sh

  #433 opened 6 months ago by daliziya
  8

• Read missing umi tag errors in 3.0.1

  #424 opened 7 months ago by drneavin
  5

• ConvertToRefFlat outputs empty file with no error messages

  #423 opened 7 months ago by GabPescador
  4

• DGE matrix with bimodal distributions of total counts

  #415 opened 8 months ago by ccuriqueo
  1

• analysis for multiple runs per sample

  #410 opened 9 months ago by shishuo16
  7

• Scripts sourcing `defs.sh` cannot be run via directory symlink.

  #403 opened 10 months ago by mschilli87
  0

• Syntax error in wrapper scripts: `: 40:` `"(" unexpected`

  #397 opened 10 months ago by mschilli87
  4

• ConvertToRefFlat: Unrecognized VM option 'UseParallelOldGC'

  #352 opened a year ago by Rohit-Satyam
  5

• Genes and strands must be of the same length

  #340 opened 10 months ago by HYJ-hh
  1

• Error during AssignCellsToSamples

  #369 opened 10 months ago by Thapeachydude
  3

• ConvertToReflFlat skips many transcripts

  #333 opened 2 years ago by auesro
  14

• Dropulation doublet rate very high

  #339 opened 2 years ago by terencewtli
  8

• CreateIntervalFiles

  #358 opened a year ago by v-mahughes
  1

• Requested array size exceeds VM limit

  #350 opened a year ago by drneavin
  4

• Donor assignment validate inputs CELL_CONTAMINATION_ESTIMATE_FILE and ALLELE_FREQUENCY_ESTIMATE_FILE

  #354 opened a year ago by jamesnemesh
  0

• About generic reads of barcode

  #309 opened a year ago by 10KGenomics
  1

• Adaptor/PolyA Trimmer

  #318 opened a year ago by v-mahughes
  5

• AssignCellsToSamples more explicit filtering results

  #324 opened a year ago by jamesnemesh
  5

• Dropulation java heap size -m option error

  #347 opened a year ago by drneavin
  2

• Patch to depend on newer biojava4

  #273 opened a year ago by pgrt
  4

• GenotypeSperm

  #264 opened a year ago by YULEITSINGTAO
  3

• Better handling of duplicate identifies in SAMPLE_FILE

  #299 opened a year ago by jamesnemesh
  1

• Exception in thread "main" org.broadinstitute.dropseqrna.TranscriptomeException: Base [13] was requested, but the read isn't long enough [GGAC]

  #310 opened a year ago by CherryX727
  4

• Request: AssignCellsToSamples fail fast when 0 cell barcodes detected.

  #322 opened a year ago by jamesnemesh
  0

• ConvertToRefFlat Problem

  #313 opened a year ago by v-mahughes
  2

• ParseBarcodeFile support gzipped files

  #323 opened a year ago by jamesnemesh
  1

• The output of DigitalExpress is an empty matrix

  #337 opened a year ago by HUPINLI
  2

• Naming suggestion for outputs of DetectDoublets

  #332 opened 2 years ago by ruochiz
  0

• Dropulation high doublet call rate

  #321 opened 2 years ago by drneavin
  9

• AssignCellsToSamples Empty Output

  #320 opened 2 years ago by drneavin
  2

• Tag Bam

  #319 opened 2 years ago by v-mahughes
  3

• CreateIntervalFiles

  #316 opened 2 years ago by v-mahughes
  6

• GatherGeneGCLength breaks on transcript writing

  #305 opened 3 years ago by jamesnemesh
  0

• about the detectbeadsubstitutionerrors module!

  #304 opened 3 years ago by 10KGenomics
  2

• GenerateSyntheticDoublets needs unit tests

  #290 opened 3 years ago by jamesnemesh
  0

• Two problems and their solutions

  #270 opened 3 years ago by dconrad
  1

• DigitalExpression: Running digital expression without somehow selecting a set of barcodes to process no longer supported

  #269 opened 3 years ago by yz3n18
  2

• VDJ Analysis

  #254 opened 4 years ago by lzy42
  2

• unknown error using ConvertTagToReadGroup

  #243 opened 4 years ago by cynthialiu
  2

• CLI says "syntax is changing" but new style doesn't work

  #241 opened 4 years ago by jamestwebber
  3

• How to Calculate Sequencing Saturation Based on UMI via Drop-seq Tools Output

  #227 opened 4 years ago by lzy42
  1

• Error in PolyATrimmer

  #244 opened 4 years ago by AweiIvy
  2

• DigitalExpression 'No space left on device'

  #237 opened 4 years ago by LiuYin3
  0