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lorganicklorganick
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analyzing cas9 vs hybridization, git lfs
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‎.gitattributes

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@@ -52,3 +52,4 @@ data/sequencing/Run_92/index.csv filter=lfs diff=lfs merge=lfs -text
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data/targets/feature_seqs.h5 filter=lfs diff=lfs merge=lfs -text
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data/queries/feature_seqs.h5 filter=lfs diff=lfs merge=lfs -text
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data/queries/images/luis_lego.jpg filter=lfs diff=lfs merge=lfs -text
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*.h5 filter=lfs diff=lfs merge=lfs -text

‎data/models/encoder_4site_model.h5

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version https://git-lfs.github.com/spec/v1
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oid sha256:ebca032bb4f2c7a9be9f5b9e711e3542998a83fbf9d7b95036a1d459d711c664
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size 139514080

‎data/models/encoder_singlesite_model.h5

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version https://git-lfs.github.com/spec/v1
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oid sha256:51eb761cef226aee418810e469dc1506e841bc1257aa45ef34e873bcaaa8eec6
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size 135581920

‎data/queries/feature_seqs.h5

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size 1063216

‎data/stats/

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LS(1) User Commands LS(1)
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NNAAMMEE
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ls - list directory contents
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SSYYNNOOPPSSIISS
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llss [_O_P_T_I_O_N]... [_F_I_L_E]...
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DDEESSCCRRIIPPTTIIOONN
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List information about the FILEs (the current directory by default). Sort entries alphabetically
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if none of --ccffttuuvvSSUUXX nor ----ssoorrtt is specified.
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Mandatory arguments to long options are mandatory for short options too.
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--aa, ----aallll
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do not ignore entries starting with .
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--AA, ----aallmmoosstt--aallll
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do not list implied . and ..
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----aauutthhoorr
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with --ll, print the author of each file
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--bb, ----eessccaappee
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print C-style escapes for nongraphic characters
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----bblloocckk--ssiizzee=_S_I_Z_E
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scale sizes by SIZE before printing them; e.g., '--block-size=M' prints sizes in units of
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1,048,576 bytes; see SIZE format below
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--BB, ----iiggnnoorree--bbaacckkuuppss
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do not list implied entries ending with ~
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--cc with --lltt: sort by, and show, ctime (time of last modification of file status information);
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with --ll: show ctime and sort by name; otherwise: sort by ctime, newest first
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--CC list entries by columns
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----ccoolloorr[=_W_H_E_N]
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colorize the output; WHEN can be 'always' (default if omitted), 'auto', or 'never'; more
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info below
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--dd, ----ddiirreeccttoorryy
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list directories themselves, not their contents
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--DD, ----ddiirreedd
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generate output designed for Emacs' dired mode
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--ff do not sort, enable --aaUU, disable --llss ----ccoolloorr
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--FF, ----ccllaassssiiffyy
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append indicator (one of */=>@|) to entries
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----ffiillee--ttyyppee
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likewise, except do not append '*'
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----ffoorrmmaatt=_W_O_R_D
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across --xx, commas --mm, horizontal --xx, long --ll, single-column --11, verbose --ll, vertical --CC
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----ffuullll--ttiimmee
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like --ll ----ttiimmee--ssttyyllee=_f_u_l_l_-_i_s_o
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--gg like --ll, but do not list owner
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----ggrroouupp--ddiirreeccttoorriieess--ffiirrsstt
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group directories before files;
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can be augmented with a ----ssoorrtt option, but any use of ----ssoorrtt=_n_o_n_e (--UU) disables grouping
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--GG, ----nnoo--ggrroouupp
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in a long listing, don't print group names
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--hh, ----hhuummaann--rreeaaddaabbllee
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with --ll and/or --ss, print human readable sizes (e.g., 1K 234M 2G)
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----ssii likewise, but use powers of 1000 not 1024
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--HH, ----ddeerreeffeerreennccee--ccoommmmaanndd--lliinnee
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follow symbolic links listed on the command line
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----ddeerreeffeerreennccee--ccoommmmaanndd--lliinnee--ssyymmlliinnkk--ttoo--ddiirr
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follow each command line symbolic link
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that points to a directory
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----hhiiddee=_P_A_T_T_E_R_N
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do not list implied entries matching shell PATTERN (overridden by --aa or --AA)
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----hhyyppeerrlliinnkk[=_W_H_E_N]
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hyperlink file names; WHEN can be 'always' (default if omitted), 'auto', or 'never'
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----iinnddiiccaattoorr--ssttyyllee=_W_O_R_D
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append indicator with style WORD to entry names: none (default), slash (--pp), file-type
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(----ffiillee--ttyyppee), classify (--FF)
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--ii, ----iinnooddee
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print the index number of each file
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--II, ----iiggnnoorree=_P_A_T_T_E_R_N
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do not list implied entries matching shell PATTERN
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--kk, ----kkiibbiibbyytteess
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default to 1024-byte blocks for disk usage
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--ll use a long listing format
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--LL, ----ddeerreeffeerreennccee
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when showing file information for a symbolic link, show information for the file the link
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references rather than for the link itself
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--mm fill width with a comma separated list of entries
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--nn, ----nnuummeerriicc--uuiidd--ggiidd
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like --ll, but list numeric user and group IDs
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--NN, ----lliitteerraall
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print entry names without quoting
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--oo like --ll, but do not list group information
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--pp, ----iinnddiiccaattoorr--ssttyyllee=_s_l_a_s_h
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append / indicator to directories
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--qq, ----hhiiddee--ccoonnttrrooll--cchhaarrss
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print ? instead of nongraphic characters
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----sshhooww--ccoonnttrrooll--cchhaarrss
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show nongraphic characters as-is (the default, unless program is 'ls' and output is a ter‐
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minal)
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--QQ, ----qquuoottee--nnaammee
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enclose entry names in double quotes
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----qquuoottiinngg--ssttyyllee=_W_O_R_D
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use quoting style WORD for entry names: literal, locale, shell, shell-always, shell-escape,
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shell-escape-always, c, escape
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--rr, ----rreevveerrssee
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reverse order while sorting
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--RR, ----rreeccuurrssiivvee
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list subdirectories recursively
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--ss, ----ssiizzee
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print the allocated size of each file, in blocks
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--SS sort by file size, largest first
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----ssoorrtt=_W_O_R_D
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sort by WORD instead of name: none (--UU), size (--SS), time (--tt), version (--vv), extension (--XX)
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----ttiimmee=_W_O_R_D
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with --ll, show time as WORD instead of default modification time: atime or access or use
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(--uu); ctime or status (--cc); also use specified time as sort key if ----ssoorrtt=_t_i_m_e (newest
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first)
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----ttiimmee--ssttyyllee=_S_T_Y_L_E
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with --ll, show times using style STYLE: full-iso, long-iso, iso, locale, or +FORMAT; FORMAT
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is interpreted like in 'date'; if FORMAT is FORMAT1<newline>FORMAT2, then FORMAT1 applies
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to non-recent files and FORMAT2 to recent files; if STYLE is prefixed with 'posix-', STYLE
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takes effect only outside the POSIX locale
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--tt sort by modification time, newest first
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--TT, ----ttaabbssiizzee=_C_O_L_S
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assume tab stops at each COLS instead of 8
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--uu with --lltt: sort by, and show, access time; with --ll: show access time and sort by name; oth‐
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erwise: sort by access time, newest first
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--UU do not sort; list entries in directory order
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--vv natural sort of (version) numbers within text
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--ww, ----wwiiddtthh=_C_O_L_S
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set output width to COLS. 0 means no limit
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--xx list entries by lines instead of by columns
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--XX sort alphabetically by entry extension
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--ZZ, ----ccoonntteexxtt
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print any security context of each file
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--11 list one file per line. Avoid '\n' with --qq or --bb
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----hheellpp display this help and exit
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----vveerrssiioonn
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output version information and exit
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The SIZE argument is an integer and optional unit (example: 10K is 10*1024). Units are
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K,M,G,T,P,E,Z,Y (powers of 1024) or KB,MB,... (powers of 1000).
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Using color to distinguish file types is disabled both by default and with ----ccoolloorr=_n_e_v_e_r. With
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----ccoolloorr=_a_u_t_o, ls emits color codes only when standard output is connected to a terminal. The
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LS_COLORS environment variable can change the settings. Use the dircolors command to set it.
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EExxiitt ssttaattuuss::
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0 if OK,
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1 if minor problems (e.g., cannot access subdirectory),
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2 if serious trouble (e.g., cannot access command-line argument).
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AAUUTTHHOORR
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Written by Richard M. Stallman and David MacKenzie.
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RREEPPOORRTTIINNGG BBUUGGSS
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GNU coreutils online help: <http://www.gnu.org/software/coreutils/>
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Report ls translation bugs to <http://translationproject.org/team/>
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CCOOPPYYRRIIGGHHTT
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Copyright © 2017 Free Software Foundation, Inc. License GPLv3+: GNU GPL version 3 or later
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<http://gnu.org/licenses/gpl.html>.
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This is free software: you are free to change and redistribute it. There is NO WARRANTY, to the
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extent permitted by law.
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SSEEEE AALLSSOO
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Full documentation at: <http://www.gnu.org/software/coreutils/ls>
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or available locally via: info '(coreutils) ls invocation'
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GNU coreutils 8.28 January 2018 LS(1)

‎data/stats/lo_random_pairings_cas9.h5

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‎data/stats/random_pairings_cas9_100x10k.h5

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‎data/stats/random_pairings_cas9_10x10000.h5

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‎data/stats/random_pairings_cas9_20x10k.h5

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‎data/stats/random_pairings_cas9_4sites_10x10000.h5

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‎data/stats/random_pairings_cas9_50x10k.h5

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‎data/stats/random_pairings_hybrid20_10x10000.h5

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‎data/stats/random_pairings_hybrid_10x10000.h5

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‎data/targets/feature_seqs.h5

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