smithlabcode/preseq

Issues

• Using gc_extrap on mitochondrial target enrichment data

  #73 opened 6 months ago by eugeniosss
  3

• about to-mr function

  #72 opened 7 months ago by SYSUMSD
  1

• ERROR: max count before zero is less than min required count (4) duplicates removed

  #71 opened 7 months ago by colin893
  3

• No configure file

  #70 opened 9 months ago by sbrillo83
  1

• Errors During make

  #69 opened a year ago by robin-sto
  7

• ERROR: max count before zero is less than min required count (4) duplicates removed

  #68 opened a year ago by liangwx332
  0

• Question: Does two reads with opposite strand with same mapping location regarded as duplicates?

  #67 opened a year ago by zztin
  1

• Best practices with low-input library with high rate of PCR duplicates

  #66 opened a year ago by jamilla-az
  4

• Not able to compile preseq (master)

  #41 opened 5 years ago by CynAro
  2

• Redundancy in setting up RNG

  #46 opened 2 years ago by terencewtli
  2

• What are defects in approximation? What are the disadvantages to using defect mode?

  #65 opened 2 years ago by sclamons
  1

• preseq lc_extrap

  #63 opened 2 years ago by DittmanC
  2

• lc_extrap: Segmentation dump

  #64 opened 2 years ago by cn6659
  1

• c_curve and lc_extrap output format

  #62 opened 2 years ago by AndreaMariani-AM
  0

• ls_extrap: too many defects, negative CI, and causes

  #61 opened 2 years ago by iamTad
  3

• ERROR: max count before zero is less than min required count (4) duplicates removed

  #59 opened 3 years ago by didillysquat
  2

• lc_extrap error: saturation

  #60 opened 2 years ago by aminakur
  1

• ERROR: reads unsorted in:

  #57 opened 3 years ago by didillysquat
  3

• to-mr produces unexpected files with garbled reads

  #58 opened 3 years ago by vmkalbskopf
  0

• Malformed file from `to-mr`

  #50 opened 4 years ago by nickp60
  6

• Estimating the curve with low read count

  #49 opened 3 years ago by JeffreyMaurer
  2

• ERROR: Malformed line in SAM format

  #28 opened 3 years ago by c-guzman
  11

• Duplication and gc_extrap

  #51 opened 4 years ago by nickp60
  2

• Histogram input file 0 counts

  #56 opened 3 years ago by isinaltinkaya
  4

• unable to install / use on el capitan mac

  #27 opened 3 years ago by proukakis
  3

• preseq sample reads is not all from bam?

  #55 opened 3 years ago by jiangfuqing
  0

• `cmath` error on mac OS v11.3.1

  #54 opened 3 years ago by BioTechTimy
  4

• cannot install with htslib support

  #53 opened 4 years ago by lidaof
  3

• Build fails due to missing size_t definition

  #52 opened 4 years ago by knowah
  6

• Cannot compile 3.1.0 with --enable-hts

  #48 opened 4 years ago by birnbera
  4

• Cannot compile preseq 3.0.2 or 3.0.1 on Linux environment

  #45 opened 4 years ago by TomKellyGenetics
  3

• Problem with SAM support in preseq v2.0.3

  #38 opened 4 years ago by andrewdavidsmith
  14

• Including preseqR as a proper subdirectory

  #23 opened 4 years ago by andrewdavidsmith
  0

• `gc_extrap` lower confidence interval giving negative number

  #44 opened 4 years ago by terencewtli
  1

• Installing preseq on a cluster

  #43 opened 4 years ago by hugokitano
  2

• Remove RNG.cpp dependency

  #42 opened 4 years ago by amalthomas111
  1

• unable to compile master branch with gcc 5.2.0

  #22 opened 5 years ago by avilella
  15

• Make All command

  #40 opened 5 years ago by CynAro
  0

• Question on lc_extrap input

  #39 opened 5 years ago by stevenlockton-progenity
  1

• Support for fastq? [Feature Request]

  #36 opened 6 years ago by MatthewRalston
  2

• problem with defect mode

  #29 opened 6 years ago by timydaley
  10

• Release 2.0.3?

  #35 opened 7 years ago by dpryan79
  1

• Is preseq aware of UMI?

  #33 opened 7 years ago by dnaase
  4

• Unexpected complexity curves

  #32 opened 7 years ago by tamaraprieto
  9

• gc_extrap: marking duplicates and not removing them

  #31 opened 7 years ago by tamaraprieto
  2

• Unable to compile preseq in OS X El Capitain

  #25 opened 8 years ago by kendomaniac
  2

• Inconsistencies between BAM v. BED

  #24 opened 8 years ago by MediciPrime
  6

• 2.0 release tarball does not include smithlab_cpp sources

  #19 opened 9 years ago by rekado
  3

• BAM sorting errors

  #21 opened 9 years ago by MatthewRalston
  5

• Not all `PROGS` can be built

  #20 opened 9 years ago by rekado
  1